# HG changeset patch
# User bgruening
# Date 1570832694 14400
# Node ID 76251d1ccdcc515619356eb9c9c212e8b54cca01
# Parent  12764915e1c5e2000af40d8406fce9fde3e26f41
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/recommendation_training/tools/tool_recommendation_model commit 6fa2a0294d615c9f267b766337dca0b2d3637219"

diff -r 12764915e1c5 -r 76251d1ccdcc create_tool_recommendation_model.xml
--- a/create_tool_recommendation_model.xml	Wed Sep 25 06:42:40 2019 -0400
+++ b/create_tool_recommendation_model.xml	Fri Oct 11 18:24:54 2019 -0400
@@ -2,11 +2,11 @@
     <description>using deep learning</description>
     <requirements>
         <requirement type="package" version="3.6">python</requirement>
-        <requirement type="package" version="1.14.0">tensorflow</requirement>
-        <requirement type="package" version="2.2.4">keras</requirement>
-        <requirement type="package" version="0.20.1">scikit-learn</requirement>
+        <requirement type="package" version="1.13.1">tensorflow</requirement>
+        <requirement type="package" version="2.3.0">keras</requirement>
+        <requirement type="package" version="0.21.3">scikit-learn</requirement>
         <requirement type="package" version="2.9.0">h5py</requirement>
-        <requirement type="package" version="1.0">csvkit</requirement>
+        <requirement type="package" version="1.0.4">csvkit</requirement>
         <requirement type="package" version="0.1.2">hyperopt</requirement>
     </requirements>
     <version_command>echo "@VERSION@"</version_command>
@@ -38,25 +38,40 @@
         <param name="input_tabular_workflows" type="data" format="tabular" label="Dataset containing workflows" help="Please provide Galaxy workflows as a tabular file."/>
         <param name="input_tabular_tool_usage" type="data" format="tabular" label="Dataset containing usage frequencies of tools" help="Please provide tools usage frequencies as a tabular file."/>
         <section name="data_parameters" title="Data parameters" expanded="False">
+
             <param name="input_cutoff_date" type="text" value="2017-12-01" label="Cutoff date" help="Provide a date (in the past) in yyyy-mm-dd format. The earliest date from which usage of tools will be extracted. For example, 2017-12-01 specifies that the usage of tools from this date until the data extraction date is extracted. The usage of tools before this date is not considered."/>
+
             <param name="input_maximum_path_length" type="integer" value="25" label="Maximum number of tools in a tool sequence" help="Provide an integer between 1 and 25. A workflow is divided into unique paths and this number specifies the maximum number of tools a path can have. Paths longer than this number are ignored and are not included in the deep learning training."/>
+
         </section>
         <section name="training_parameters" title="Training parameters" expanded="False">
-            <param name="max_evals" type="integer" value="2" label="Maximum number of evaluations of different configurations of parameters" help="Provide an integer. Different combinations of parameters are sampled and optimized to find the best one. This number specifies the number of different configurations sampled and tested."/>
-            <param name="optimize_n_epochs" type="integer" value="2" label="Number of training iterations to optimize the neural network parameters" help="Provide an integer. This number specifies the number of training iterations done for each sampled configuration while optimising the parameters."/>
-            <param name="n_epochs" type="integer" value="2" label="Number of training iterations" help="Provide an integer. This specifies the number of deep learning training iterations done after finding the best/optimised configuration of neural network parameters."/>
-            <param name="test_share" type="float" value="0.2" label="Share of the test data" help="Provide a real number between 0.0 and 1.0. This set of data is used to look through the prediction accuracy on unseen data after neural network training on an optimised configuration of parameters. It should be set to 0.0 while training for a model to be deployed to production. The minimum value can be 0.0 and maximum value should not be more than 0.5."/>
+            <param name="max_evals" type="integer" value="50" label="Maximum number of evaluations of different configurations of parameters" help="Provide an integer. Different combinations of parameters are sampled and optimized to find the best one. This number specifies the number of different configurations sampled and tested."/>
+
+            <param name="optimize_n_epochs" type="integer" value="20" label="Number of training iterations to optimize the neural network parameters" help="Provide an integer. This number specifies the number of training iterations done for each sampled configuration while optimising the parameters."/>
+
+            <param name="n_epochs" type="integer" value="20" label="Number of training iterations" help="Provide an integer. This specifies the number of deep learning training iterations done after finding the best/optimised configuration of neural network parameters."/>
+
+            <param name="test_share" type="float" value="0.0" label="Share of the test data" help="Provide a real number between 0.0 and 1.0. This set of data is used to look through the prediction accuracy on unseen data after neural network training on an optimised configuration of parameters. It should be set to 0.0 while training for a model to be deployed to production. The minimum value can be 0.0 and maximum value should not be more than 0.5."/>
+
             <param name="validation_share" type="float" value="0.2" label="Share of the validation data" help="Provide a real number between 0.0 and 1.0. This set of data is used to validate each step of learning while optimising the configurations of parameters. The minimum value can be 0.0 and maximum value should not be more than 0.5."/>
+
         </section>
         <section name="nn_parameters" title="Neural network parameters" expanded="False">
-            <param name="batch_size" type="text" value="30,500" label="Training batch size" help="Provide a comma-separated range to sample the batch size from. The training of the neural network is done using batch learning in this work. The training data is divided into equal batches and for each epoch (a training iteration), all the batches of data are trained one after another. An example: 10,500." />
-            <param name="units" type="text" value="30,500" label="Number of hidden recurrent units" help="Provide a comma-separated range to sample the number of hidden recurrent units. A higher value provide stronger neural network model (may lead to overfitting in case of smaller data) and smaller value leads to weaker model (may lead to underfitting in case of larger data). An example: 30,500."/>
-            <param name="embedding_size" type="text" value="30,500" label="Embedding vector size" help="Provide a comma-separated range to sample the embedding size for tools. A fixed-size vector is learned for each tool. This number specifies the fixed-size. An example: 30,500."/>
+            <param name="batch_size" type="text" value="1,512" label="Training batch size" help="Provide a comma-separated range to sample the batch size from. The training of the neural network is done using batch learning in this work. The training data is divided into equal batches and for each epoch (a training iteration), all the batches of data are trained one after another. An example: 1,512." />
+
+            <param name="units" type="text" value="1,512" label="Number of hidden recurrent units" help="Provide a comma-separated range to sample the number of hidden recurrent units. A higher value provide stronger neural network model (may lead to overfitting in case of smaller data) and smaller value leads to weaker model (may lead to underfitting in case of larger data). An example: 1,512."/>
+
+            <param name="embedding_size" type="text" value="1,512" label="Embedding vector size" help="Provide a comma-separated range to sample the embedding size for tools. A fixed-size vector is learned for each tool. This number specifies the fixed-size. An example: 1,512."/>
+
             <param name="dropout" type="text" value="0.0,0.5" label="Dropout between neural network layers" help="Provide a comma-separated range to sample the amount of dropout to be used after neural netwrok layers. The minimum value should be 0.0 and the maximum value should be 1.0. Dropout is used to prevent or minimize overfitting after each neural network layer. An example: 0.0,0.5"/>
+
             <param name="spatial_dropout" type="text" value="0.0,0.5" label="Dropout for the embedding layer" help="Provide a comma-separated range to sample the amount of dropout to be used after embedding layer. The minimum value should be 0.0 and the maximum value should be 1.0. Dropout is used to prevent or minimize overfitting in the embedding layer. An example: 0.0,0.5"/>
+
             <param name="recurrent_dropout" type="text" value="0.0,0.5" label="Dropout for recurrent layers" help="Provide a comma-separated range to sample the amount of dropout to be used for the recurrent layers. The minimum value should be 0.0 and the maximum value should be 1.0. Dropout is used to prevent or minimize overfitting in the recurrent layers. An example: 0.0,0.5"/>
+
             <param name="learning_rate" type="text" value="0.0001,0.1" label="Learning rate" help="Provide a range of positive real numbers to sample the learning rate. Learning rate defines the speed of neural network learning. A higher value will ensure fast learning and smaller value will ensure slower learning. An example: 0.0001,0.1"/>
             <param name="activation_recurrent" type="text" value="elu" label="Name of the activation function for recurrent layers" help="It is a mathematical function that transforms the input of recurrent layers to the following neural network layer."/>
+
             <param name="activation_output" type="text" value="sigmoid" label="Name of the activation function for output layer" help="It is a mathematical function that transforms the input of the last dense layer to the output of the neural network."/>
         </section>
     </inputs>
@@ -66,13 +81,70 @@
     <tests>
         <test>
             <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/> 
+            <param name="max_evals" value="1"/>
+            <param name="optimize_n_epochs" value="1"/>
+            <param name="n_epochs" value="1"/>
+            <param name="test_share" value="0.1"/>
+            <output name="outfile_model">
+                <assert_contents>
+                    <has_h5_keys keys="best_parameters,class_weights,compatible_tools,data_dictionary,model_config,weight_0,weight_1,weight_2,weight_3,weight_4,weight_5,weight_6,weight_7,weight_8"/>
+                </assert_contents>
+            </output>
+        </test>
+        <test>
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
             <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="max_evals" value="1"/>
+            <param name="optimize_n_epochs" value="1"/>
+            <param name="n_epochs" value="1"/>
+            <param name="test_share" value="0.0"/>
             <output name="outfile_model">
                 <assert_contents>
                     <has_h5_keys keys="best_parameters,class_weights,compatible_tools,data_dictionary,model_config,weight_0,weight_1,weight_2,weight_3,weight_4,weight_5,weight_6,weight_7,weight_8"/>
                 </assert_contents>
             </output>
         </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="validation_share" value="0.0"/>
+        </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="batch_size" value="1"/>
+        </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="units" value="1"/>
+        </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="embedding_size" value="1"/>
+        </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="dropout" value="0.1"/>
+        </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="spatial_dropout" value="0.1"/>
+        </test>
+        <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="recurrent_dropout" value="0.1"/>
+        </test>
+         <test expect_failure="true">
+            <param name="input_tabular_workflows" value="test_workflows" ftype="tabular"/>
+            <param name="input_tabular_tool_usage" value="test_tool_usage" ftype="tabular"/>
+            <param name="learning_rate" value="0.0001"/>
+        </test>
     </tests>
     <help>
         <![CDATA[
@@ -154,7 +226,7 @@
                 Author = {Anup Kumar and Björn Grüning},
                 keywords = {bioinformatics, recommendation system, deep learning},
                 title = {{Tool recommendation system for Galaxy workflows}},
-                url = {https://github.com/anuprulez/galaxytools}
+                url = {https://github.com/bgruening/galaxytools}
             }
         </citation>
     </citations>
diff -r 12764915e1c5 -r 76251d1ccdcc main.py
--- a/main.py	Wed Sep 25 06:42:40 2019 -0400
+++ b/main.py	Fri Oct 11 18:24:54 2019 -0400
@@ -8,6 +8,8 @@
 import time
 
 # machine learning library
+import tensorflow as tf
+from keras import backend as K
 import keras.callbacks as callbacks
 
 import extract_workflow_connections
@@ -19,8 +21,16 @@
 class PredictTool:
 
     @classmethod
-    def __init__(self):
+    def __init__(self, num_cpus):
         """ Init method. """
+        # set the number of cpus
+        cpu_config = tf.ConfigProto(
+            device_count={"CPU": num_cpus},
+            intra_op_parallelism_threads=num_cpus,
+            inter_op_parallelism_threads=num_cpus,
+            allow_soft_placement=True
+        )
+        K.set_session(tf.Session(config=cpu_config))
 
     @classmethod
     def find_train_best_network(self, network_config, reverse_dictionary, train_data, train_labels, test_data, test_labels, n_epochs, class_weights, usage_pred, compatible_next_tools):
@@ -29,39 +39,43 @@
         """
         print("Start hyperparameter optimisation...")
         hyper_opt = optimise_hyperparameters.HyperparameterOptimisation()
-        best_params = hyper_opt.train_model(network_config, reverse_dictionary, train_data, train_labels, test_data, test_labels, class_weights)
-
-        # retrieve the model and train on complete dataset without validation set
-        model, best_params = utils.set_recurrent_network(best_params, reverse_dictionary, class_weights)
+        best_params, best_model = hyper_opt.train_model(network_config, reverse_dictionary, train_data, train_labels, class_weights)
 
         # define callbacks
+        early_stopping = callbacks.EarlyStopping(monitor='loss', mode='min', verbose=1, min_delta=1e-4, restore_best_weights=True)
         predict_callback_test = PredictCallback(test_data, test_labels, reverse_dictionary, n_epochs, compatible_next_tools, usage_pred)
-        # tensor_board = callbacks.TensorBoard(log_dir=log_directory, histogram_freq=0, write_graph=True, write_images=True)
-        callbacks_list = [predict_callback_test]
+
+        callbacks_list = [predict_callback_test, early_stopping]
 
         print("Start training on the best model...")
-        model_fit = model.fit(
-            train_data,
-            train_labels,
-            batch_size=int(best_params["batch_size"]),
-            epochs=n_epochs,
-            verbose=2,
-            callbacks=callbacks_list,
-            shuffle="batch",
-            validation_data=(test_data, test_labels)
-        )
-
-        train_performance = {
-            "train_loss": np.array(model_fit.history["loss"]),
-            "model": model,
-            "best_parameters": best_params
-        }
-
-        # if there is test data, add more information
+        train_performance = dict()
         if len(test_data) > 0:
-            train_performance["validation_loss"] = np.array(model_fit.history["val_loss"])
+            trained_model = best_model.fit(
+                train_data,
+                train_labels,
+                batch_size=int(best_params["batch_size"]),
+                epochs=n_epochs,
+                verbose=2,
+                callbacks=callbacks_list,
+                shuffle="batch",
+                validation_data=(test_data, test_labels)
+            )
+            train_performance["validation_loss"] = np.array(trained_model.history["val_loss"])
             train_performance["precision"] = predict_callback_test.precision
             train_performance["usage_weights"] = predict_callback_test.usage_weights
+        else:
+            trained_model = best_model.fit(
+                train_data,
+                train_labels,
+                batch_size=int(best_params["batch_size"]),
+                epochs=n_epochs,
+                verbose=2,
+                callbacks=callbacks_list,
+                shuffle="batch"
+            )
+        train_performance["train_loss"] = np.array(trained_model.history["loss"])
+        train_performance["model"] = best_model
+        train_performance["best_parameters"] = best_params
         return train_performance
 
 
@@ -90,6 +104,7 @@
 
 if __name__ == "__main__":
     start_time = time.time()
+
     arg_parser = argparse.ArgumentParser()
     arg_parser.add_argument("-wf", "--workflow_file", required=True, help="workflows tabular file")
     arg_parser.add_argument("-tu", "--tool_usage_file", required=True, help="tool usage file")
@@ -112,6 +127,7 @@
     arg_parser.add_argument("-lr", "--learning_rate", required=True, help="learning rate")
     arg_parser.add_argument("-ar", "--activation_recurrent", required=True, help="activation function for recurrent layers")
     arg_parser.add_argument("-ao", "--activation_output", required=True, help="activation function for output layers")
+
     # get argument values
     args = vars(arg_parser.parse_args())
     tool_usage_path = args["tool_usage_file"]
@@ -133,6 +149,7 @@
     learning_rate = args["learning_rate"]
     activation_recurrent = args["activation_recurrent"]
     activation_output = args["activation_output"]
+    num_cpus = 16
 
     config = {
         'cutoff_date': cutoff_date,
@@ -161,7 +178,7 @@
     data = prepare_data.PrepareData(maximum_path_length, test_share)
     train_data, train_labels, test_data, test_labels, data_dictionary, reverse_dictionary, class_weights, usage_pred = data.get_data_labels_matrices(workflow_paths, tool_usage_path, cutoff_date, compatible_next_tools)
     # find the best model and start training
-    predict_tool = PredictTool()
+    predict_tool = PredictTool(num_cpus)
     # start training with weighted classes
     print("Training with weighted classes and samples ...")
     results_weighted = predict_tool.find_train_best_network(config, reverse_dictionary, train_data, train_labels, test_data, test_labels, n_epochs, class_weights, usage_pred, compatible_next_tools)
diff -r 12764915e1c5 -r 76251d1ccdcc optimise_hyperparameters.py
--- a/optimise_hyperparameters.py	Wed Sep 25 06:42:40 2019 -0400
+++ b/optimise_hyperparameters.py	Fri Oct 11 18:24:54 2019 -0400
@@ -22,7 +22,7 @@
         """ Init method. """
 
     @classmethod
-    def train_model(self, config, reverse_dictionary, train_data, train_labels, test_data, test_labels, class_weights):
+    def train_model(self, config, reverse_dictionary, train_data, train_labels, class_weights):
         """
         Train a model and report accuracy
         """
@@ -46,7 +46,7 @@
         # get dimensions
         dimensions = len(reverse_dictionary) + 1
         best_model_params = dict()
-        early_stopping = EarlyStopping(monitor='val_loss', mode='min', min_delta=1e-4, verbose=1, patience=1)
+        early_stopping = EarlyStopping(monitor='val_loss', mode='min', verbose=1, min_delta=1e-4)
 
         # specify the search space for finding the best combination of parameters using Bayesian optimisation
         params = {
@@ -82,11 +82,12 @@
                 validation_split=validation_split,
                 callbacks=[early_stopping]
             )
-            return {'loss': model_fit.history["val_loss"][-1], 'status': STATUS_OK}
-        # minimize the objective function using the set of parameters above4
+            return {'loss': model_fit.history["val_loss"][-1], 'status': STATUS_OK, 'model': model}
+        # minimize the objective function using the set of parameters above
         trials = Trials()
         learned_params = fmin(create_model, params, trials=trials, algo=tpe.suggest, max_evals=int(config["max_evals"]))
-        print(learned_params)
+        best_model = trials.results[np.argmin([r['loss'] for r in trials.results])]['model']
+
         # set the best params with respective values
         for item in learned_params:
             item_val = learned_params[item]
@@ -96,4 +97,4 @@
                 best_model_params[item] = l_recurrent_activations[item_val]
             else:
                 best_model_params[item] = item_val
-        return best_model_params
+        return best_model_params, best_model
diff -r 12764915e1c5 -r 76251d1ccdcc test-data/test_tool_usage
--- a/test-data/test_tool_usage	Wed Sep 25 06:42:40 2019 -0400
+++ b/test-data/test_tool_usage	Fri Oct 11 18:24:54 2019 -0400
@@ -998,5219 +998,3 @@
 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_xtandemadapter/XTandemAdapter/2.2.0.1	2019-02-01	2
 toolshed.g2.bx.psu.edu/repos/devteam/kraken2tax/Kraken2Tax/1.2	2019-02-01	2
 toolshed.g2.bx.psu.edu/repos/devteam/vcffilter/vcffilter2/0.0.3	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert_win/3.0.0	2019-02-01	2
-__DATA_FETCH__	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_annotatebed/2.27.0.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/goseq/goseq/1.32.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/2.1.2.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/goslimmer/goslimmer/1.0.1	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/1.136.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_FilterSamReads/2.18.2.1	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/crs4/edena/edena_ovl_wrapper/0.3	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/bonsai/sortmerna/sortmerna_wrapper/1.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/blankenberg/naive_variant_caller/naive_variant_caller/0.0.3	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_bam_stat/2.6.4	2019-02-01	2
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-toolshed.g2.bx.psu.edu/repos/devteam/vcf2tsv/vcf2tsv/1.0.0_rc1+galaxy0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/blastxml_to_tabular/0.3.1	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/humann2_renorm_table/humann2_renorm_table/0.11.1.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/idba_ud/idba_ud/1.1.3	2019-02-01	2
-nn_classifier	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermrm/FeatureFinderMRM/2.3.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_ob_genProp/1.0	2019-02-01	2
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-toolshed.g2.bx.psu.edu/repos/bgruening/openbabel_genprop/openbabel_genProp/2.4.1.0	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/trinity_filter_low_expr_transcripts/trinity_filter_low_expr_transcripts/2.8.4	2019-02-01	2
-toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_groups/mothur_get_groups/1.39.5.0	2019-02-01	2
-__EXTRACT_DATASET__	2019-02-01	2
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diff -r 12764915e1c5 -r 76251d1ccdcc test-data/test_workflows
--- a/test-data/test_workflows	Wed Sep 25 06:42:40 2019 -0400
+++ b/test-data/test_workflows	Fri Oct 11 18:24:54 2019 -0400
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-174	2013-06-09 19:14:00	2320	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2350		
-174	2013-06-09 19:14:00	2320	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2351		
-174	2013-06-09 19:14:00	2321	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2352		
-174	2013-06-09 19:14:00	2321	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2353		
-174	2013-06-09 19:14:00	2323	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2356		
-174	2013-06-09 19:14:00	2323	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2357		
-174	2013-06-09 19:14:00	2324	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2358		
-174	2013-06-09 19:14:00	2324	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2359		
-176	2013-06-12 15:39:00	2383	Cut1		2374		
-176	2013-06-12 15:39:00	2385	Filter1		2383	Cut1	
-176	2013-06-12 15:39:00	2387	Add_a_column1		2385	Filter1	
-176	2013-06-12 15:39:00	2388	methtools_calling		2386	samtools_rmdup	
-176	2013-06-12 15:39:00	2390	Filter1		2388	methtools_calling	
-176	2013-06-12 15:39:00	2392	gops_subtract_1		2388	methtools_calling	
-176	2013-06-12 15:39:00	2396	cshl_find_and_replace		2393	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2397	Add_a_column1		2394	Add_a_column1	
-176	2013-06-12 15:39:00	2399	cshl_find_and_replace		2396	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2400	cshl_find_and_replace		2399	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2403	cshl_find_and_replace		2402	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2406	Cut1		2405	Add_a_column1	
-176	2013-06-12 15:39:00	2408	mergeCols1		2407	addValue	
-179	2013-06-12 20:23:00	2444	Paste1	1.0.0	2442	methtools_filter	0.1.1
-179	2013-06-12 20:23:00	2444	Paste1	1.0.0	2442	methtools_filter	0.1.1
-179	2013-06-12 20:23:00	2449	Add_a_column1	1.1.0	2446	Filter1	1.1.0
-179	2013-06-12 20:23:00	2450	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2447	Filter1	1.1.0
-179	2013-06-12 20:23:00	2450	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2451	Cut1	1.0.2
-182	2013-06-15 20:36:00	2505	Cut1	1.0.2	2504		
-182	2013-06-15 20:36:00	2506	Filter1	1.1.0	2505	Cut1	1.0.2
-182	2013-06-15 20:36:00	2509	cshl_find_and_replace	1.0.0	2508	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2512	cshl_find_and_replace	1.0.0	2511	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2515	cshl_find_and_replace	1.0.0	2514	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2519	addValue	1.0.0	2518	Cut1	1.0.2
-182	2013-06-15 20:36:00	2520	mergeCols1	1.0.1	2519	addValue	1.0.0
-205	2013-06-21 07:07:00	2667	Cut1	1.0.2	2664	Add_a_column1	1.1.0
-205	2013-06-21 07:07:00	2664	Add_a_column1	1.1.0	2665	Add_a_column1	1.1.0
-205	2013-06-21 07:07:00	2670	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2668	Cut1	1.0.2
-205	2013-06-21 07:07:00	2668	Cut1	1.0.2	2669	mergeCols1	1.0.1
-205	2013-06-21 07:07:00	2677	cshl_find_and_replace	1.0.0	2674	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2670	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2680		
-218	2013-06-21 19:40:00	2794	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2792	methtools_destrand	0.1.1
-218	2013-06-21 19:40:00	2795	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2792	methtools_destrand	0.1.1
-218	2013-06-21 19:40:00	2794	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2793	methtools_destrand	0.1.1
-218	2013-06-21 19:40:00	2795	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2793	methtools_destrand	0.1.1
-218	2013-06-21 19:40:00	2797	methtools_filter	0.1.1	2794	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-218	2013-06-21 19:40:00	2797	methtools_filter	0.1.1	2795	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-218	2013-06-21 19:40:00	2796	methtools_dmr	0.1.1	2797	methtools_filter	0.1.1
-218	2013-06-21 19:40:00	2796	methtools_dmr	0.1.1	2797	methtools_filter	0.1.1
-224	2013-06-22 06:21:00	2852	cshl_sort_header	0.1	2849		
-229	2013-06-22 14:59:00	2862	methtools_destrand	0.1.1	2863	cshl_sort_header	0.1
-241	2013-06-23 20:34:00	3003	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2996	Filter1	1.1.0
-241	2013-06-23 20:34:00	3001	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2997	Filter1	1.1.0
-241	2013-06-23 20:34:00	3002	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2998	Filter1	1.1.0
-241	2013-06-23 20:34:00	3003	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2998	Filter1	1.1.0
-241	2013-06-23 20:34:00	3001	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2999	Filter1	1.1.0
-241	2013-06-23 20:34:00	3002	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3003	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-241	2013-06-23 20:34:00	2997	Filter1	1.1.0	3004		
-241	2013-06-23 20:34:00	2998	Filter1	1.1.0	3005		
-241	2013-06-23 20:34:00	2999	Filter1	1.1.0	3005		
-242	2013-06-24 11:29:00	3036	bowtie2		3006		
-242	2013-06-24 11:29:00	3037	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3007		
-242	2013-06-24 11:29:00	3038	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3008		
-242	2013-06-24 11:29:00	3039	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3009		
-242	2013-06-24 11:29:00	3042	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3010		
-242	2013-06-24 11:29:00	3044	bowtie2		3012		
-242	2013-06-24 11:29:00	3045	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3012		
-242	2013-06-24 11:29:00	3053	bowtie2		3018		
-242	2013-06-24 11:29:00	3054	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3018		
-242	2013-06-24 11:29:00	3057	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3028		
-242	2013-06-24 11:29:00	3058	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3029		
-242	2013-06-24 11:29:00	3060	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3031		
-242	2013-06-24 11:29:00	3067	bowtie2		3039	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3069	bowtie2		3042	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3070	bowtie2		3043	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3072	bowtie2		3046	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3074	bowtie2		3049	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3077	samtools_rmdup		3053	bowtie2	
-242	2013-06-24 11:29:00	3081	bowtie2		3057	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3082	bowtie2		3058	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3085	bowtie2		3061	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3091	samtools_rmdup		3068	bowtie2	
-242	2013-06-24 11:29:00	3094	samtools_rmdup		3071	bowtie2	
-242	2013-06-24 11:29:00	3095	samtools_rmdup		3072	bowtie2	
-242	2013-06-24 11:29:00	3097	samtools_rmdup		3074	bowtie2	
-242	2013-06-24 11:29:00	3100	samtools_rmdup		3078	bowtie2	
-242	2013-06-24 11:29:00	3101	samtools_rmdup		3079	bowtie2	
-242	2013-06-24 11:29:00	3102	samtools_rmdup		3080	bowtie2	
-242	2013-06-24 11:29:00	3106	samtools_rmdup		3084	bowtie2	
-242	2013-06-24 11:29:00	3108	samtools_rmdup		3086	bowtie2	
-242	2013-06-24 11:29:00	3110	sam_merge2		3087	samtools_rmdup	
-242	2013-06-24 11:29:00	3109	sam_merge2		3088	samtools_rmdup	
-242	2013-06-24 11:29:00	3109	sam_merge2		3089	samtools_rmdup	
-242	2013-06-24 11:29:00	3110	sam_merge2		3090	samtools_rmdup	
-242	2013-06-24 11:29:00	3111	sam_merge2		3091	samtools_rmdup	
-242	2013-06-24 11:29:00	3111	sam_merge2		3093	samtools_rmdup	
-242	2013-06-24 11:29:00	3112	sam_merge2		3094	samtools_rmdup	
-242	2013-06-24 11:29:00	3112	sam_merge2		3095	samtools_rmdup	
-242	2013-06-24 11:29:00	3114	sam_merge2		3098	samtools_rmdup	
-242	2013-06-24 11:29:00	3114	sam_merge2		3099	samtools_rmdup	
-242	2013-06-24 11:29:00	3122	bam2wig		3111	sam_merge2	
-242	2013-06-24 11:29:00	3124	bam2wig		3113	sam_merge2	
-242	2013-06-24 11:29:00	3125	bam2wig		3114	sam_merge2	
-242	2013-06-24 11:29:00	3126	bam2wig		3115	sam_merge2	
-242	2013-06-24 11:29:00	3129	bam2wig		3119	sam_merge2	
-243	2013-06-27 14:03:00	3131	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3130		
-243	2013-06-27 14:03:00	3132	bowtie2		3131	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-250	2013-06-27 04:51:00	3181	methtools_filter	0.1.1	3178	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-250	2013-06-27 04:51:00	3181	methtools_filter	0.1.1	3179	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-250	2013-06-27 04:51:00	3180	methtools_dmr	0.1.1	3181	methtools_filter	0.1.1
-250	2013-06-27 04:51:00	3180	methtools_dmr	0.1.1	3181	methtools_filter	0.1.1
-250	2013-06-27 04:51:00	3178	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3182		
-250	2013-06-27 04:51:00	3179	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3182		
-250	2013-06-27 04:51:00	3178	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3183		
-250	2013-06-27 04:51:00	3179	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3183		
-252	2013-06-27 09:40:00	3191	Add_a_column1	1.1.0	3189	Add_a_column1	1.1.0
-252	2013-06-27 09:40:00	3192	Filter1	1.1.0	3190	Cut1	1.0.2
-252	2013-06-27 09:40:00	3189	Add_a_column1	1.1.0	3193		
-264	2013-07-31 09:27:00	3274	bowtie2	0.1	3272	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-264	2013-07-31 09:27:00	3275	bowtie2	0.1	3273	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-264	2013-07-31 09:27:00	3276	samtools_rmdup	1.0.0	3274	bowtie2	0.1
-264	2013-07-31 09:27:00	3277	samtools_rmdup	1.0.0	3275	bowtie2	0.1
-264	2013-07-31 09:27:00	3278	bam2wig	1.3	3279	sam_merge2	1.1.2
-264	2013-07-31 09:27:00	3273	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3281		
-278	2013-06-30 21:55:00	3370	bismark_bowtie	0.7.12	3368	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-278	2013-06-30 21:55:00	3370	bismark_bowtie	0.7.12	3368	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-278	2013-06-30 21:55:00	3368	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3371		
-278	2013-06-30 21:55:00	3368	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3372		
-281	2013-07-01 13:45:00	3379	Convert characters1		3378		
-281	2013-07-01 13:45:00	3383	Cut1		3382	Add_a_column1	
-285	2013-07-03 14:58:00	3394	Summary_Statistics1	1.1.0	3393	Filter1	1.1.0
-285	2013-07-03 14:58:00	3393	Filter1	1.1.0	3395		
-292	2013-07-03 17:45:00	3470	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3455		
-292	2013-07-03 17:45:00	3470	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3456		
-292	2013-07-03 17:45:00	3473	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3461		
-292	2013-07-03 17:45:00	3473	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3462		
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-292	2013-07-03 17:45:00	3488	cufflinks		3463		
-292	2013-07-03 17:45:00	3474	tophat2		3464	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3474	tophat2		3464	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3475	tophat2		3465	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3475	tophat2		3465	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3478	tophat2		3468	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3478	tophat2		3468	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3480	tophat2		3470	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3480	tophat2		3470	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3481	tophat2		3471	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3481	tophat2		3471	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3483	tophat2		3473	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3483	tophat2		3473	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
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-292	2013-07-03 17:45:00	3497	cuffdiff		3474	tophat2	
-292	2013-07-03 17:45:00	3499	cuffdiff		3474	tophat2	
-292	2013-07-03 17:45:00	3497	cuffdiff		3475	tophat2	
-292	2013-07-03 17:45:00	3499	cuffdiff		3475	tophat2	
-292	2013-07-03 17:45:00	3497	cuffdiff		3476	tophat2	
-292	2013-07-03 17:45:00	3499	cuffdiff		3476	tophat2	
-292	2013-07-03 17:45:00	3498	cuffdiff		3477	tophat2	
-292	2013-07-03 17:45:00	3488	cufflinks		3478	tophat2	
-292	2013-07-03 17:45:00	3498	cuffdiff		3478	tophat2	
-292	2013-07-03 17:45:00	3497	cuffdiff		3479	tophat2	
-292	2013-07-03 17:45:00	3499	cuffdiff		3479	tophat2	
-292	2013-07-03 17:45:00	3497	cuffdiff		3480	tophat2	
-292	2013-07-03 17:45:00	3499	cuffdiff		3480	tophat2	
-292	2013-07-03 17:45:00	3497	cuffdiff		3481	tophat2	
-292	2013-07-03 17:45:00	3499	cuffdiff		3481	tophat2	
-292	2013-07-03 17:45:00	3498	cuffdiff		3482	tophat2	
-292	2013-07-03 17:45:00	3495	cufflinks		3483	tophat2	
-292	2013-07-03 17:45:00	3498	cuffdiff		3483	tophat2	
-292	2013-07-03 17:45:00	3497	cuffdiff		3496	cuffmerge	
-292	2013-07-03 17:45:00	3498	cuffdiff		3496	cuffmerge	
-292	2013-07-03 17:45:00	3499	cuffdiff		3496	cuffmerge	
-295	2013-07-03 17:52:00	3526	cufflinks	0.0.5	3525	tophat2	0.5
-296	2013-07-03 17:55:00	3529	tophat2	0.5	3528	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-300	2013-07-03 19:48:00	3546	addValue	1.0.0	3545		
-314	2013-07-05 09:46:00	3639	Add_a_column1	1.1.0	3642		
-327	2013-07-10 07:51:00	3755	Filter1	1.1.0	3756		
-327	2013-07-10 07:51:00	3757	Filter1	1.1.0	3756		
-327	2013-07-10 07:51:00	3754	Summary_Statistics1	1.1.0	3757	Filter1	1.1.0
-328	2013-07-10 08:24:00	3763	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3761	Filter1	1.1.0
-328	2013-07-10 08:24:00	3758	Filter1	1.1.0	3764		
-328	2013-07-10 08:24:00	3763	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3765		
-334	2013-07-10 09:39:00	3799	Add_a_column1	1.1.0	3798	Filter1	1.1.0
-334	2013-07-10 09:39:00	3802	Add_a_column1	1.1.0	3800	Filter1	1.1.0
-334	2013-07-10 09:39:00	3803	cat1	1.0.0	3801	Cut1	1.0.2
-334	2013-07-10 09:39:00	3804	Cut1	1.0.2	3802	Add_a_column1	1.1.0
-334	2013-07-10 09:39:00	3803	cat1	1.0.0	3804	Cut1	1.0.2
-334	2013-07-10 09:39:00	3805	Filter1	1.1.0	3806	Filter1	1.1.0
-334	2013-07-10 09:39:00	3800	Filter1	1.1.0	3807		
-355	2013-07-15 13:11:00	4001	heatmapper	1.3	4004	Cut1	1.0.2
-355	2013-07-15 13:11:00	4001	heatmapper	1.3	4007		
-358	2013-07-17 13:29:00	4024	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4025	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-358	2013-07-17 13:29:00	4025	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4026	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-358	2013-07-17 13:29:00	4025	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4027	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-358	2013-07-17 13:29:00	4030	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4027	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-358	2013-07-17 13:29:00	4030	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4029	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-358	2013-07-17 13:29:00	4024	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4030	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-358	2013-07-17 13:29:00	4026	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4032		
-358	2013-07-17 13:29:00	4026	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4033		
-359	2013-07-18 15:24:00	4038	bowtie2	0.1	4036	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-371	2013-07-24 20:44:00	4191	wig_to_bigWig	1.1.0	4176	Filter1	1.1.0
-371	2013-07-24 20:44:00	4178	wig_to_bigWig	1.1.0	4183	Filter1	1.1.0
-371	2013-07-24 20:44:00	4177	wig_to_bigWig	1.1.0	4184	Filter1	1.1.0
-371	2013-07-24 20:44:00	4172	wig_to_bigWig	1.1.0	4185	Filter1	1.1.0
-371	2013-07-24 20:44:00	4173	wig_to_bigWig	1.1.0	4188	Filter1	1.1.0
-371	2013-07-24 20:44:00	4175	wig_to_bigWig	1.1.0	4190	Filter1	1.1.0
-371	2013-07-24 20:44:00	4203	wig_to_bigWig	1.1.0	4192	Filter1	1.1.0
-371	2013-07-24 20:44:00	4209	wig_to_bigWig	1.1.0	4194	Filter1	1.1.0
-371	2013-07-24 20:44:00	4208	wig_to_bigWig	1.1.0	4197	Filter1	1.1.0
-371	2013-07-24 20:44:00	4184	Filter1	1.1.0	4210		
-371	2013-07-24 20:44:00	4188	Filter1	1.1.0	4210		
-371	2013-07-24 20:44:00	4200	Filter1	1.1.0	4210		
-375	2013-07-26 14:02:00	4287	heatmapper	1.3	4299		
-375	2013-07-26 14:02:00	4287	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4289	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4290	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4291	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4293	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4294	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4295	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4296	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4297	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4289	heatmapper	1.3	4302		
-375	2013-07-26 14:02:00	4290	heatmapper	1.3	4303		
-375	2013-07-26 14:02:00	4291	heatmapper	1.3	4304		
-375	2013-07-26 14:02:00	4293	heatmapper	1.3	4306		
-375	2013-07-26 14:02:00	4294	heatmapper	1.3	4307		
-375	2013-07-26 14:02:00	4295	heatmapper	1.3	4308		
-375	2013-07-26 14:02:00	4296	heatmapper	1.3	4309		
-375	2013-07-26 14:02:00	4297	heatmapper	1.3	4310		
-380	2013-07-31 09:32:00	4349	samtools_rmdup	1.0.0	4346	bowtie2	0.1
-380	2013-07-31 09:32:00	4348	bam2wig	1.3	4349	samtools_rmdup	1.0.0
-392	2013-07-31 20:28:00	4430	mergeCols1	1.0.1	4426	addValue	1.0.0
-392	2013-07-31 20:28:00	4432	addValue	1.0.0	4427	Filter1	1.1.0
-392	2013-07-31 20:28:00	4434	mergeCols1	1.0.1	4429	addValue	1.0.0
-392	2013-07-31 20:28:00	4423	Cut1	1.0.2	4434	mergeCols1	1.0.1
-394	2013-08-01 09:49:00	4445	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4444	Filter1	1.1.0
-394	2013-08-01 09:49:00	4448	cat1	1.0.0	4445	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-394	2013-08-01 09:49:00	4448	cat1	1.0.0	4446	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-394	2013-08-01 09:49:00	4447	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4448	cat1	1.0.0
-394	2013-08-01 09:49:00	4444	Filter1	1.1.0	4449		
-394	2013-08-01 09:49:00	4445	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4450		
-394	2013-08-01 09:49:00	4447	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4451		
-397	2013-08-01 21:11:00	4469	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4468	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-397	2013-08-01 21:11:00	4470	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4468	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-397	2013-08-01 21:11:00	4469	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4473	smooth_running_window	0.1
-397	2013-08-01 21:11:00	4470	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4473	smooth_running_window	0.1
-397	2013-08-01 21:11:00	4473	smooth_running_window	0.1	4476		
-397	2013-08-01 21:11:00	4474	smooth_running_window	0.1	4477		
-402	2013-08-07 16:03:00	4502	bamCorrelate_deepTools		4499		
-402	2013-08-07 16:03:00	4502	bamCorrelate_deepTools		4500		
-416	2013-08-09 06:53:00	4589	bamCompare_deepTools	1	4594		
-416	2013-08-09 06:53:00	4589	bamCompare_deepTools	1	4595		
-416	2013-08-09 06:53:00	4590	Grep1	1.0.1	4596		
-418	2013-08-09 06:54:00	4603	bamFingerprint	1	4605		
-418	2013-08-09 06:54:00	4604	bamCorrelate_deepTools	1.0.1	4605		
-418	2013-08-09 06:54:00	4603	bamFingerprint	1	4606		
-418	2013-08-09 06:54:00	4604	bamCorrelate_deepTools	1.0.1	4606		
-421	2013-08-09 07:28:00	4618	computeMatrix	1	4617	bamCoverage_deepTools	1
-421	2013-08-09 07:28:00	4618	computeMatrix	1	4619		
-421	2013-08-09 07:28:00	4617	bamCoverage_deepTools	1	4620		
-422	2013-08-09 07:32:00	4624	computeGCBias	1.0.1	4627		
-425	2013-08-20 12:23:00	4645	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastn_wrapper/0.0.19		4643		
-425	2013-08-20 12:23:00	4648	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastx_wrapper/0.0.19		4644		
-425	2013-08-20 12:23:00	4649	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.0.19		4644		
-441	2013-08-28 22:32:00	4911	bowtie2	0.1	4912	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-441	2013-08-28 22:32:00	4911	bowtie2	0.1	4912	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-448	2013-09-06 13:03:00	4968	bowtie2	0.1	4969	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-448	2013-09-06 13:03:00	4968	bowtie2	0.1	4969	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-448	2013-09-06 13:03:00	4970	bam2wig	1.3	4971	samtools_rmdup	1.0.0
-448	2013-09-06 13:03:00	4972	samtools_flagstat	1.0.0	4971	samtools_rmdup	1.0.0
-448	2013-09-06 13:03:00	4969	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	4973		
-448	2013-09-06 13:03:00	4969	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	4974		
-449	2013-08-29 08:59:00	4980	bowtie2	0.1	4978	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-449	2013-08-29 08:59:00	4980	bowtie2	0.1	4978	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-449	2013-08-29 08:59:00	4976	samtools_rmdup	1.0.0	4982	sam_merge2	1.1.2
-449	2013-08-29 08:59:00	4977	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	4983		
-449	2013-08-29 08:59:00	4977	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	4984		
-449	2013-08-29 08:59:00	4978	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	4985		
-449	2013-08-29 08:59:00	4978	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	4986		
-451	2013-09-05 19:05:00	4997	Cut1	1.0.2	4996	smooth_running_window	0.1
-451	2013-09-05 19:05:00	4999	Cut1	1.0.2	4998	smooth_running_window	0.1
-451	2013-09-05 19:05:00	5005	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5003	Filter1	1.1.0
-451	2013-09-05 19:05:00	5005	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5004	Filter1	1.1.0
-451	2013-09-05 19:05:00	5007	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5004	Filter1	1.1.0
-451	2013-09-05 19:05:00	4993	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5006	Filter1	1.1.0
-451	2013-09-05 19:05:00	4993	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5008	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-451	2013-09-05 19:05:00	5007	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5008	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-451	2013-09-05 19:05:00	5004	Filter1	1.1.0	5011		
-452	2013-09-06 13:03:00	5016	samtools_rmdup	1.0.0	5013	bowtie2	0.1
-454	2013-09-11 09:15:00	5024	Cut1	1.0.2	5025	Add_a_column1	1.1.0
-456	2013-09-12 14:07:00	5038	Cut1	1.0.2	5041	Add_a_column1	1.1.0
-456	2013-09-12 14:07:00	5041	Add_a_column1	1.1.0	5042	Cut1	1.0.2
-456	2013-09-12 14:07:00	5039	Add_a_column1	1.1.0	5043		
-457	2013-09-16 19:21:00	5045	samtools_rmdup	1.0.0	5046	bismark_bowtie	0.7.12
-457	2013-09-16 19:21:00	5044	fastq_quality_trimmer	1.0.0	5047		
-458	2013-09-17 07:28:00	5051	methtools_destrand	0.1.1	5048	cshl_sort_header	0.1
-458	2013-09-17 07:28:00	5050	smooth_running_window	0.1	5051	methtools_destrand	0.1.1
-458	2013-09-17 07:28:00	5049	methtools_calling	0.1.1	5052		
-459	2013-09-18 08:54:00	5055	Summary_Statistics1	1.1.0	5054	Add_a_column1	1.1.0
-459	2013-09-18 08:54:00	5058	gops_intersect_1	1.0.0	5059	Cut1	1.0.2
-459	2013-09-18 08:54:00	5061	gops_intersect_1	1.0.0	5059	Cut1	1.0.2
-459	2013-09-18 08:54:00	5062	Add_a_column1	1.1.0	5061	gops_intersect_1	1.0.0
-459	2013-09-18 08:54:00	5053	Summary_Statistics1	1.1.0	5063	Add_a_column1	1.1.0
-459	2013-09-18 08:54:00	5057	Summary_Statistics1	1.1.0	5064		
-459	2013-09-18 08:54:00	5058	gops_intersect_1	1.0.0	5065		
-459	2013-09-18 08:54:00	5061	gops_intersect_1	1.0.0	5067		
-483	2013-09-23 14:40:00	5191	cshl_awk_tool	1.0.0	5189		
-483	2013-09-23 14:40:00	5192	get_flanks1	1.0.0	5190		
-483	2013-09-23 14:40:00	5194	cshl_find_and_replace	1.0.0	5191	cshl_awk_tool	1.0.0
-483	2013-09-23 14:40:00	5193	cshl_find_and_replace	1.0.0	5191	cshl_awk_tool	1.0.0
-483	2013-09-23 14:40:00	5196	CONVERTER_interval_to_bed_0	1.0.0	5194	cshl_find_and_replace	1.0.0
-483	2013-09-23 14:40:00	5197	barchart_gnuplot	1.0.0	5195	Count1	1.0.0
-484	2013-09-23 14:40:00	5200	gops_intersect_1	1.0.0	5198		
-484	2013-09-23 14:40:00	5200	gops_intersect_1	1.0.0	5199		
-484	2013-09-23 14:40:00	5202	barchart_gnuplot	1.0.0	5201	Count1	1.0.0
-486	2013-09-23 14:40:00	5210	gops_intersect_1	1.0.0	5208		
-486	2013-09-23 14:40:00	5210	gops_intersect_1	1.0.0	5209		
-486	2013-09-23 14:40:00	5211	Count1	1.0.0	5210	gops_intersect_1	1.0.0
-488	2013-09-23 14:41:00	5221	Count1	1.0.0	5220	gops_intersect_1	1.0.0
-488	2013-09-23 14:41:00	5222	barchart_gnuplot	1.0.0	5221	Count1	1.0.0
-489	2013-09-23 14:41:00	5225	gops_intersect_1	1.0.0	5223		
-489	2013-09-23 14:41:00	5225	gops_intersect_1	1.0.0	5224		
-489	2013-09-23 14:41:00	5226	Count1	1.0.0	5225	gops_intersect_1	1.0.0
-490	2013-09-23 14:41:00	5231	Count1	1.0.0	5230	gops_intersect_1	1.0.0
-490	2013-09-23 14:41:00	5232	barchart_gnuplot	1.0.0	5231	Count1	1.0.0
-491	2013-09-23 14:42:00	5235	gops_intersect_1	1.0.0	5233		
-491	2013-09-23 14:42:00	5235	gops_intersect_1	1.0.0	5234		
-491	2013-09-23 14:42:00	5236	Count1	1.0.0	5235	gops_intersect_1	1.0.0
-491	2013-09-23 14:42:00	5237	barchart_gnuplot	1.0.0	5236	Count1	1.0.0
-492	2013-09-23 14:41:00	5240	gops_intersect_1	1.0.0	5238		
-492	2013-09-23 14:41:00	5240	gops_intersect_1	1.0.0	5239		
-492	2013-09-23 14:41:00	5241	Count1	1.0.0	5240	gops_intersect_1	1.0.0
-493	2013-09-23 14:41:00	5247	barchart_gnuplot	1.0.0	5246	Count1	1.0.0
-494	2013-09-23 14:41:00	5251	Count1	1.0.0	5250	gops_intersect_1	1.0.0
-494	2013-09-23 14:41:00	5252	barchart_gnuplot	1.0.0	5251	Count1	1.0.0
-495	2013-09-23 14:41:00	5254	Count1	1.0.0	5253	gops_intersect_1	1.0.0
-495	2013-09-23 14:41:00	5257	barchart_gnuplot	1.0.0	5254	Count1	1.0.0
-496	2013-09-23 15:20:00	5262	barchart_gnuplot	1.0.0	5261	Count1	1.0.0
-501	2014-09-11 09:03:00	5279	sort1	1.0.2	5278	Cut1	1.0.2
-501	2014-09-11 09:03:00	5280	cshl_uniq_tool	1.0.0	5279	sort1	1.0.2
-502	2013-09-23 15:30:00	5282	Cut1	1.0.2	5281		
-502	2013-09-23 15:30:00	5283	cshl_sort_header	0.1	5282	Cut1	1.0.2
-506	2013-09-23 15:32:00	5298	Cut1	1.0.2	5297		
-506	2013-09-23 15:32:00	5299	cshl_uniq_tool	1.0.0	5298	Cut1	1.0.2
-506	2013-09-23 15:32:00	5300	sort1	1.0.2	5299	cshl_uniq_tool	1.0.0
-507	2013-09-23 15:33:00	5303	sort1	1.0.2	5302	Cut1	1.0.2
-508	2013-09-23 15:34:00	5310	gops_intersect_1		5306	cshl_find_and_replace	
-508	2013-09-23 15:34:00	5308	Add_a_column1		5307	Add_a_column1	
-508	2013-09-23 15:34:00	5309	Cut1		5308	Add_a_column1	
-508	2013-09-23 15:34:00	5310	gops_intersect_1		5309	Cut1	
-508	2013-09-23 15:34:00	5312	Cut1		5310	gops_intersect_1	
-508	2013-09-23 15:34:00	5313	barchart_gnuplot		5311	Count1	
-508	2013-09-23 15:34:00	5314	cshl_uniq_tool		5312	Cut1	
-511	2013-09-23 15:37:00	5325	cshl_sort_header	0.1	5326	Cut1	1.0.2
-511	2013-09-23 15:37:00	5326	Cut1	1.0.2	5327		
-514	2013-09-25 15:28:00	5470	fastq_quality_trimmer	1.0.0	5449		
-514	2013-09-25 15:28:00	5471	fastq_quality_trimmer	1.0.0	5450		
-514	2013-09-25 15:28:00	5473	fastq_quality_trimmer	1.0.0	5452		
-514	2013-09-25 15:28:00	5474	smooth_running_window	0.1	5452		
-514	2013-09-25 15:28:00	5476	fastq_quality_trimmer	1.0.0	5454		
-514	2013-09-25 15:28:00	5478	fastq_quality_trimmer	1.0.0	5456		
-514	2013-09-25 15:28:00	5481	fastq_quality_trimmer	1.0.0	5459		
-514	2013-09-25 15:28:00	5485	fastq_quality_trimmer	1.0.0	5462		
-514	2013-09-25 15:28:00	5489	bismark_bowtie	0.7.12	5469	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5492	bismark_bowtie	0.7.12	5472	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5494	bismark_bowtie	0.7.12	5475	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5499	bismark_bowtie	0.7.12	5480	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5500	bismark_bowtie	0.7.12	5481	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5501	bismark_bowtie	0.7.12	5482	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5502	bismark_bowtie	0.7.12	5484	fastq_quality_trimmer	1.0.0
-514	2013-09-25 15:28:00	5505	samtools_rmdup	1.0.0	5489	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5506	samtools_rmdup	1.0.0	5490	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5507	samtools_rmdup	1.0.0	5491	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5508	samtools_rmdup	1.0.0	5492	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5509	samtools_rmdup	1.0.0	5493	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5510	samtools_rmdup	1.0.0	5494	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5512	samtools_rmdup	1.0.0	5496	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5516	samtools_rmdup	1.0.0	5500	bismark_bowtie	0.7.12
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5505	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5506	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5507	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5508	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5509	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5510	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5511	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5512	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5513	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5514	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5515	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5516	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5517	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5518	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5521	sam_merge2	1.1.2	5519	samtools_rmdup	1.0.0
-514	2013-09-25 15:28:00	5524	methtools_destrand	0.1.1	5523	cshl_sort_header	0.1
-514	2013-09-25 15:28:00	5525	smooth_running_window	0.1	5524	methtools_destrand	0.1.1
-514	2013-09-25 15:28:00	5528	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5525	smooth_running_window	0.1
-514	2013-09-25 15:28:00	5529	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5525	smooth_running_window	0.1
-514	2013-09-25 15:28:00	5530	methtools_filter	0.1.1	5526	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-514	2013-09-25 15:28:00	5530	methtools_filter	0.1.1	5527	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-514	2013-09-25 15:28:00	5531	methtools_filter	0.1.1	5528	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-514	2013-09-25 15:28:00	5531	methtools_filter	0.1.1	5529	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-514	2013-09-25 15:28:00	5536	addValue	1.0.0	5532	methtools_dmr	0.1.1
-514	2013-09-25 15:28:00	5535	Summary_Statistics1	1.1.0	5532	methtools_dmr	0.1.1
-514	2013-09-25 15:28:00	5542	mergeCols1	1.0.1	5536	addValue	1.0.0
-514	2013-09-25 15:28:00	5544	Filter1	1.1.0	5537	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-514	2013-09-25 15:28:00	5546	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	5538	Cut1	1.0.2
-514	2013-09-25 15:28:00	5549	Summary_Statistics1	1.1.0	5540	Filter1	1.1.0
-514	2013-09-25 15:28:00	5554	Summary_Statistics1	1.1.0	5544	Filter1	1.1.0
-514	2013-09-25 15:28:00	5555	addValue	1.0.0	5544	Filter1	1.1.0
-514	2013-09-25 15:28:00	5557	Summary_Statistics1	1.1.0	5545	Filter1	1.1.0
-514	2013-09-25 15:28:00	5559	mergeCols1	1.0.1	5550	addValue	1.0.0
-514	2013-09-25 15:28:00	5560	mergeCols1	1.0.1	5551	addValue	1.0.0
-514	2013-09-25 15:28:00	5563	mergeCols1	1.0.1	5556	addValue	1.0.0
-514	2013-09-25 15:28:00	5564	Cut1	1.0.2	5559	mergeCols1	1.0.1
-514	2013-09-25 15:28:00	5565	Cut1	1.0.2	5560	mergeCols1	1.0.1
-514	2013-09-25 15:28:00	5566	Cut1	1.0.2	5562	mergeCols1	1.0.1
-514	2013-09-25 15:28:00	5567	Cut1	1.0.2	5563	mergeCols1	1.0.1
-516	2013-09-26 10:59:00	5574	Cut1	1.0.2	5575	Add_a_column1	1.1.0
-529	2013-09-26 15:26:00	6048	Add_a_column1	1.1.0	6046	Filter1	1.1.0
-529	2013-09-26 15:26:00	6049	wig_to_bigWig	1.1.0	6047	Cut1	1.0.2
-530	2013-09-26 15:34:00	6055	Filter1	1.1.0	6052		
-530	2013-09-26 15:34:00	6061	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	6052		
-530	2013-09-26 15:34:00	6056	Cut1	1.0.2	6053		
-530	2013-09-26 15:34:00	6057	cshl_sort_header	0.1	6054	methtools_calling	0.1.1
-530	2013-09-26 15:34:00	6059	Add_a_column1	1.1.0	6055	Filter1	1.1.0
-530	2013-09-26 15:34:00	6077	computeMatrix	1	6056	Cut1	1.0.2
-530	2013-09-26 15:34:00	6065	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	6056	Cut1	1.0.2
-530	2013-09-26 15:34:00	6082	computeMatrix	1	6056	Cut1	1.0.2
-530	2013-09-26 15:34:00	6061	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	6057	cshl_sort_header	0.1
-530	2013-09-26 15:34:00	6064	cshl_uniq_tool	1.0.0	6058	cshl_sort_header	0.1
-530	2013-09-26 15:34:00	6065	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	6058	cshl_sort_header	0.1
-530	2013-09-26 15:34:00	6075	methtools_plot	0.1.1	6061	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-530	2013-09-26 15:34:00	6068	Add_a_column1	1.1.0	6062	Filter1	1.1.0
-530	2013-09-26 15:34:00	6075	methtools_plot	0.1.1	6063	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-530	2013-09-26 15:34:00	6069	Cut1	1.0.2	6063	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-530	2013-09-26 15:34:00	6071	Filter1	1.1.0	6064	cshl_uniq_tool	1.0.0
-530	2013-09-26 15:34:00	6086	computeMatrix	1	6065	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-530	2013-09-26 15:34:00	6073	Cut1	1.0.2	6068	Add_a_column1	1.1.0
-530	2013-09-26 15:34:00	6075	methtools_plot	0.1.1	6070	methtools_dmr	0.1.1
-530	2013-09-26 15:34:00	6076	Add_a_column1	1.1.0	6071	Filter1	1.1.0
-530	2013-09-26 15:34:00	6077	computeMatrix	1	6072	wig_to_bigWig	1.1.0
-530	2013-09-26 15:34:00	6078	wig_to_bigWig	1.1.0	6073	Cut1	1.0.2
-530	2013-09-26 15:34:00	6080	Cut1	1.0.2	6076	Add_a_column1	1.1.0
-530	2013-09-26 15:34:00	6082	computeMatrix	1	6078	wig_to_bigWig	1.1.0
-530	2013-09-26 15:34:00	6083	wig_to_bigWig	1.1.0	6080	Cut1	1.0.2
-530	2013-09-26 15:34:00	6086	computeMatrix	1	6083	wig_to_bigWig	1.1.0
-530	2013-09-26 15:34:00	6087	heatmapper_deepTools	1	6085	computeMatrix	1
-532	2013-09-27 13:06:00	6097	CONVERTER_interval_to_bedstrict_0	1.0.0	6096		
-533	2013-09-27 15:05:00	6111	computeMatrix		6109	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	
-533	2013-09-27 15:05:00	6111	computeMatrix		6110	bamCompare_deepTools	
-534	2013-10-01 14:58:00	6132	tophat2		6115		
-534	2013-10-01 14:58:00	6132	tophat2		6116		
-534	2013-10-01 14:58:00	6134	fastqc		6120		
-534	2013-10-01 14:58:00	6136	Cut1		6126		
-534	2013-10-01 14:58:00	6139	cufflinks		6133	tophat2	
-534	2013-10-01 14:58:00	6141	Show beginning1		6138	Cut1	
-534	2013-10-01 14:58:00	6142	Show tail1		6138	Cut1	
-534	2013-10-01 14:58:00	6143	cshl_sort_header		6140	cuffdiff	
-534	2013-10-01 14:58:00	6146	cshl_sort_header		6145	Cut1	
-535	2013-10-07 15:54:00	6152	ctb_change_title	0.0.1	6148	ctb_online_data_fetch	0.2
-535	2013-10-07 15:54:00	6153	Filter1	1.1.0	6149	ctb_online_data_fetch	0.2
-535	2013-10-07 15:54:00	6155	Filter1	1.1.0	6151	ctb_pubchem_download_as_smiles	1.0.0
-535	2013-10-07 15:54:00	6156	ctb_compound_convert	0.1	6152	ctb_change_title	0.0.1
-535	2013-10-07 15:54:00	6163	addValue	1.0.0	6159	ctb_compound_convert	0.1
-535	2013-10-07 15:54:00	6164	bg_uniq	0.3	6160	addValue	1.0.0
-535	2013-10-07 15:54:00	6170	Cut1	1.0.2	6169	mergeCols1	1.0.1
-535	2013-10-07 15:54:00	6171	Filter1	1.1.0	6170	Cut1	1.0.2
-535	2013-10-07 15:54:00	6173	bg_uniq	0.3	6172	sed_stream_editor	0.0.1
-535	2013-10-07 15:54:00	6176	bg_uniq	0.3	6175	Grep1	1.0.1
-538	2013-10-10 11:07:00	6210	Extract_features1	1.0.0	6209	Filter1	1.1.0
-542	2013-10-15 14:55:00	6233	Filter1	1.1.0	6231		
-542	2013-10-15 14:55:00	6234	heatmapper	1.3	6232		
-542	2013-10-15 14:55:00	6234	heatmapper	1.3	6233	Filter1	1.1.0
-542	2013-10-15 14:55:00	6235	Remove beginning1	1.0.0	6234	heatmapper	1.3
-542	2013-10-15 14:55:00	6236	Remove_ending	1.0.0	6235	Remove beginning1	1.0.0
-558	2013-10-18 12:48:00	6666	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.0.20	0.0.20	6665		
-558	2013-10-18 12:48:00	6667	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/blastxml_to_tabular/0.0.11	0.0.11	6666	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.0.20	0.0.20
-573	2013-10-21 07:49:00	10901	Remove beginning1	1.0.0	10826	heatmapper	1.3
-573	2013-10-21 07:49:00	10902	Remove beginning1	1.0.0	10827	heatmapper	1.3
-573	2013-10-21 07:49:00	10999	Remove beginning1	1.0.0	10831	heatmapper	1.3
-573	2013-10-21 07:49:00	10916	heatmapper	1.3	10835	Filter1	1.1.0
-573	2013-10-21 07:49:00	10906	heatmapper	1.3	10837	Filter1	1.1.0
-573	2013-10-21 07:49:00	11009	heatmapper	1.3	10838	Filter1	1.1.0
-573	2013-10-21 07:49:00	10876	Filter1	1.1.0	10839	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10878	Filter1	1.1.0	10839	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10882	Filter1	1.1.0	10839	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10965	Filter1	1.1.0	10840	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10969	Filter1	1.1.0	10840	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10972	Filter1	1.1.0	10840	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10973	Filter1	1.1.0	10840	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11083	Filter1	1.1.0	10841	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11085	Filter1	1.1.0	10841	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11086	Filter1	1.1.0	10841	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11089	Filter1	1.1.0	10841	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10914	Filter1	1.1.0	10842	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11091	Filter1	1.1.0	10842	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10963	Remove_ending	1.0.0	10846	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11020	Cut1	1.0.2	10850	Filter1	1.1.0
-573	2013-10-21 07:49:00	10885	Paste1	1.0.0	10853	Cut1	1.0.2
-573	2013-10-21 07:49:00	10847	Paste1	1.0.0	10856	Paste1	1.0.0
-573	2013-10-21 07:49:00	10995	Remove beginning1	1.0.0	10864	heatmapper	1.3
-573	2013-10-21 07:49:00	10997	Remove beginning1	1.0.0	10867	heatmapper	1.3
-573	2013-10-21 07:49:00	11006	Remove_ending	1.0.0	10872	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10861	heatmapper	1.3	10874	Filter1	1.1.0
-573	2013-10-21 07:49:00	10860	heatmapper	1.3	10875	Filter1	1.1.0
-573	2013-10-21 07:49:00	11028	heatmapper	1.3	10877	Filter1	1.1.0
-573	2013-10-21 07:49:00	10857	heatmapper	1.3	10878	Filter1	1.1.0
-573	2013-10-21 07:49:00	10873	heatmapper	1.3	10879	Filter1	1.1.0
-573	2013-10-21 07:49:00	10904	heatmapper	1.3	10880	Filter1	1.1.0
-573	2013-10-21 07:49:00	11106	Paste1	1.0.0	10885	Paste1	1.0.0
-573	2013-10-21 07:49:00	11106	Paste1	1.0.0	10886	Cut1	1.0.2
-573	2013-10-21 07:49:00	10885	Paste1	1.0.0	10887	Paste1	1.0.0
-573	2013-10-21 07:49:00	11093	Remove_ending	1.0.0	10891	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10937	Remove_ending	1.0.0	10893	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10921	Remove_ending	1.0.0	10896	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10884	Remove_ending	1.0.0	10897	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10985	Remove_ending	1.0.0	10899	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10961	Remove_ending	1.0.0	10900	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10927	Remove_ending	1.0.0	10902	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11081	Remove beginning1	1.0.0	10905	heatmapper	1.3
-573	2013-10-21 07:49:00	10976	heatmapper	1.3	10910	heatmapper	1.3
-573	2013-10-21 07:49:00	10977	Remove beginning1	1.0.0	10910	heatmapper	1.3
-573	2013-10-21 07:49:00	11072	heatmapper	1.3	10911	Filter1	1.1.0
-573	2013-10-21 07:49:00	11080	Remove beginning1	1.0.0	10916	heatmapper	1.3
-573	2013-10-21 07:49:00	11070	heatmapper	1.3	10917	Filter1	1.1.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10919	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	11099	Remove_ending	1.0.0	10920	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11017	Cut1	1.0.2	10925	Filter1	1.1.0
-573	2013-10-21 07:49:00	11045	Remove_ending	1.0.0	10926	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10927	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10929	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	11056	Cut1	1.0.2	10930	cat1	1.0.0
-573	2013-10-21 07:49:00	11005	Remove beginning1	1.0.0	10935	heatmapper	1.3
-573	2013-10-21 07:49:00	10852	Remove beginning1	1.0.0	10941	heatmapper	1.3
-573	2013-10-21 07:49:00	10890	Remove beginning1	1.0.0	10942	heatmapper	1.3
-573	2013-10-21 07:49:00	10819	Remove beginning1	1.0.0	10947	heatmapper	1.3
-573	2013-10-21 07:49:00	10941	heatmapper	1.3	10949	Filter1	1.1.0
-573	2013-10-21 07:49:00	10944	heatmapper	1.3	10950	Filter1	1.1.0
-573	2013-10-21 07:49:00	11015	heatmapper	1.3	10951	Filter1	1.1.0
-573	2013-10-21 07:49:00	11012	heatmapper	1.3	10952	Filter1	1.1.0
-573	2013-10-21 07:49:00	11010	heatmapper	1.3	10954	Filter1	1.1.0
-573	2013-10-21 07:49:00	11003	heatmapper	1.3	10957	Filter1	1.1.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10959	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	10847	Paste1	1.0.0	10960	Cut1	1.0.2
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10961	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	11101	Remove_ending	1.0.0	10962	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10862	heatmapper	1.3	10965	Filter1	1.1.0
-573	2013-10-21 07:49:00	10866	heatmapper	1.3	10969	Filter1	1.1.0
-573	2013-10-21 07:49:00	10867	heatmapper	1.3	10970	Filter1	1.1.0
-573	2013-10-21 07:49:00	10869	heatmapper	1.3	10972	Filter1	1.1.0
-573	2013-10-21 07:49:00	10827	heatmapper	1.3	10973	Filter1	1.1.0
-573	2013-10-21 07:49:00	11050	Remove_ending	1.0.0	10975	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11048	Remove_ending	1.0.0	10977	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11043	Remove_ending	1.0.0	10978	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11053	Remove_ending	1.0.0	10980	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10821	Remove_ending	1.0.0	10981	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10985	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	10986	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	10934	Remove_ending	1.0.0	10987	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10933	Remove_ending	1.0.0	10988	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11055	Remove_ending	1.0.0	10990	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11094	Remove_ending	1.0.0	10991	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10959	Remove_ending	1.0.0	10992	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11018	Cut1	1.0.2	10993	Filter1	1.1.0
-573	2013-10-21 07:49:00	10986	Remove_ending	1.0.0	10995	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10843	Remove beginning1	1.0.0	11002	heatmapper	1.3
-573	2013-10-21 07:49:00	11040	Remove beginning1	1.0.0	11003	heatmapper	1.3
-573	2013-10-21 07:49:00	11051	Remove_ending	1.0.0	11004	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11052	Remove_ending	1.0.0	11005	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	11037	Remove beginning1	1.0.0	11010	heatmapper	1.3
-573	2013-10-21 07:49:00	11036	Remove beginning1	1.0.0	11013	heatmapper	1.3
-573	2013-10-21 07:49:00	11038	Remove beginning1	1.0.0	11015	heatmapper	1.3
-573	2013-10-21 07:49:00	11022	cshl_word_list_grep	1.0.0	11017	Cut1	1.0.2
-573	2013-10-21 07:49:00	10840	cshl_word_list_grep	1.0.0	11021	Cut1	1.0.2
-573	2013-10-21 07:49:00	10835	Filter1	1.1.0	11022	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10837	Filter1	1.1.0	11022	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10845	Filter1	1.1.0	11022	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10952	Filter1	1.1.0	11022	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10954	Filter1	1.1.0	11022	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11057	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11058	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11059	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11060	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11061	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11062	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11064	Filter1	1.1.0	11024	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10955	Filter1	1.1.0	11025	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11065	Filter1	1.1.0	11025	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	11066	Filter1	1.1.0	11025	cshl_word_list_grep	1.0.0
-573	2013-10-21 07:49:00	10893	Remove beginning1	1.0.0	11026	heatmapper	1.3
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	11027	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	11102	Remove_ending	1.0.0	11030	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10822	Remove_ending	1.0.0	11039	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10994	Remove_ending	1.0.0	11041	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10854	Cut1	1.0.2	11042	cat1	1.0.0
-573	2013-10-21 07:49:00	10856	Paste1	1.0.0	11046	Cut1	1.0.2
-573	2013-10-21 07:49:00	10870	Remove_ending	1.0.0	11047	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10856	Paste1	1.0.0	11056	Cut1	1.0.2
-573	2013-10-21 07:49:00	10907	heatmapper	1.3	11057	Filter1	1.1.0
-573	2013-10-21 07:49:00	10910	heatmapper	1.3	11058	Filter1	1.1.0
-573	2013-10-21 07:49:00	10936	heatmapper	1.3	11059	Filter1	1.1.0
-573	2013-10-21 07:49:00	10908	heatmapper	1.3	11060	Filter1	1.1.0
-573	2013-10-21 07:49:00	10948	heatmapper	1.3	11063	Filter1	1.1.0
-573	2013-10-21 07:49:00	10942	heatmapper	1.3	11065	Filter1	1.1.0
-573	2013-10-21 07:49:00	10947	heatmapper	1.3	11066	Filter1	1.1.0
-573	2013-10-21 07:49:00	11019	Cut1	1.0.2	11067	Filter1	1.1.0
-573	2013-10-21 07:49:00	11030	Remove beginning1	1.0.0	11074	heatmapper	1.3
-573	2013-10-21 07:49:00	10998	Remove beginning1	1.0.0	11076	heatmapper	1.3
-573	2013-10-21 07:49:00	10981	Remove beginning1	1.0.0	11077	heatmapper	1.3
-573	2013-10-21 07:49:00	11098	Remove_ending	1.0.0	11079	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10817	Remove_ending	1.0.0	11080	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10818	Remove_ending	1.0.0	11081	Remove beginning1	1.0.0
-573	2013-10-21 07:49:00	10833	heatmapper	1.3	11083	Filter1	1.1.0
-573	2013-10-21 07:49:00	10830	heatmapper	1.3	11086	Filter1	1.1.0
-573	2013-10-21 07:49:00	10831	heatmapper	1.3	11087	Filter1	1.1.0
-573	2013-10-21 07:49:00	10824	heatmapper	1.3	11088	Filter1	1.1.0
-573	2013-10-21 07:49:00	10825	heatmapper	1.3	11089	Filter1	1.1.0
-573	2013-10-21 07:49:00	11077	heatmapper	1.3	11091	Filter1	1.1.0
-573	2013-10-21 07:49:00	11042	cat1	1.0.0	11094	Remove_ending	1.0.0
-573	2013-10-21 07:49:00	10851	Remove beginning1	1.0.0	11100	heatmapper	1.3
-573	2013-10-21 07:49:00	10824	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10825	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10827	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10830	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10831	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10833	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10857	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10860	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10861	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10862	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10866	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10867	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10869	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10873	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10904	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10906	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10907	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10908	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10910	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10916	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10936	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10941	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10942	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10944	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10947	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10948	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10976	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11003	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11009	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11010	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11012	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11015	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11028	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11070	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11072	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	11077	heatmapper	1.3	11103		
-573	2013-10-21 07:49:00	10840	cshl_word_list_grep	1.0.0	11104		
-573	2013-10-21 07:49:00	11022	cshl_word_list_grep	1.0.0	11104		
-573	2013-10-21 07:49:00	10848	Filter1	1.1.0	11105		
-573	2013-10-21 07:49:00	10928	Filter1	1.1.0	11105		
-573	2013-10-21 07:49:00	11068	Filter1	1.1.0	11105		
-576	2013-10-21 09:06:00	11204	Cut1	1.0.2	11205	Add_a_column1	1.1.0
-576	2013-10-21 09:06:00	11203	Cut1	1.0.2	11206	Add_a_column1	1.1.0
-576	2013-10-21 09:06:00	11205	Add_a_column1	1.1.0	11207	Filter1	1.1.0
-576	2013-10-21 09:06:00	11207	Filter1	1.1.0	11208	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-576	2013-10-21 09:06:00	11208	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	11210	smooth_running_window	0.1
-576	2013-10-21 09:06:00	11210	smooth_running_window	0.1	11211	Filter1	1.1.0
-576	2013-10-21 09:06:00	11212	methtools_destrand	0.1.1	11213	cshl_sort_header	0.1
-576	2013-10-21 09:06:00	11213	cshl_sort_header	0.1	11214	Cut1	1.0.2
-576	2013-10-21 09:06:00	11215	Add_a_column1	1.1.0	11216	Cut1	1.0.2
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11222		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11223		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11224		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11225		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11226		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11227		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11228		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11229		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11230		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11231		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11232		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11233		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11234		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11235		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11236		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11237		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11238		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11239		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11240		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11241		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11242		
-576	2013-10-21 09:06:00	11221	cat1	1.0.0	11243		
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11244	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11245	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11246	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11247	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11248	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11249	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11250	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11251	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11529	Remove_ending	1.0.0	11252	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11502	cat1	1.0.0	11255	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11256	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11328	Remove beginning1	1.0.0	11257	heatmapper	1.3
-577	2013-10-21 10:42:00	11334	Remove beginning1	1.0.0	11259	heatmapper	1.3
-577	2013-10-21 10:42:00	11335	Remove beginning1	1.0.0	11260	heatmapper	1.3
-577	2013-10-21 10:42:00	11353	Remove beginning1	1.0.0	11262	heatmapper	1.3
-577	2013-10-21 10:42:00	11432	Remove beginning1	1.0.0	11264	heatmapper	1.3
-577	2013-10-21 10:42:00	11324	Remove beginning1	1.0.0	11265	heatmapper	1.3
-577	2013-10-21 10:42:00	11327	Remove beginning1	1.0.0	11266	heatmapper	1.3
-577	2013-10-21 10:42:00	11349	heatmapper	1.3	11268	Filter1	1.1.0
-577	2013-10-21 10:42:00	11307	Filter1	1.1.0	11272	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11401	Filter1	1.1.0	11273	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11402	Filter1	1.1.0	11273	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11406	Filter1	1.1.0	11273	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11515	Filter1	1.1.0	11274	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11345	Filter1	1.1.0	11275	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11347	Filter1	1.1.0	11275	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11348	Filter1	1.1.0	11275	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11351	Filter1	1.1.0	11275	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11524	Filter1	1.1.0	11275	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11415	Remove_ending	1.0.0	11276	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11444	heatmapper	1.3	11278	Filter1	1.1.0
-577	2013-10-21 10:42:00	11322	Paste1	1.0.0	11280	Paste1	1.0.0
-577	2013-10-21 10:42:00	11365	Remove_ending	1.0.0	11285	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11318	Paste1	1.0.0	11286	Cut1	1.0.2
-577	2013-10-21 10:42:00	11322	Paste1	1.0.0	11288	Cut1	1.0.2
-577	2013-10-21 10:42:00	11280	Paste1	1.0.0	11289	Paste1	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11292	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11434	Remove beginning1	1.0.0	11296	heatmapper	1.3
-577	2013-10-21 10:42:00	11430	Remove beginning1	1.0.0	11300	heatmapper	1.3
-577	2013-10-21 10:42:00	11439	Remove_ending	1.0.0	11305	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11422	Remove beginning1	1.0.0	11306	heatmapper	1.3
-577	2013-10-21 10:42:00	11294	heatmapper	1.3	11307	Filter1	1.1.0
-577	2013-10-21 10:42:00	11293	heatmapper	1.3	11308	Filter1	1.1.0
-577	2013-10-21 10:42:00	11459	heatmapper	1.3	11309	Filter1	1.1.0
-577	2013-10-21 10:42:00	11290	heatmapper	1.3	11311	Filter1	1.1.0
-577	2013-10-21 10:42:00	11306	heatmapper	1.3	11312	Filter1	1.1.0
-577	2013-10-21 10:42:00	11337	heatmapper	1.3	11313	Filter1	1.1.0
-577	2013-10-21 10:42:00	11342	heatmapper	1.3	11314	Filter1	1.1.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11317	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11318	Paste1	1.0.0	11320	Paste1	1.0.0
-577	2013-10-21 10:42:00	11356	Remove_ending	1.0.0	11323	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11526	Remove_ending	1.0.0	11324	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11370	Remove_ending	1.0.0	11326	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11354	Remove_ending	1.0.0	11329	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11371	Remove_ending	1.0.0	11331	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11364	Remove_ending	1.0.0	11334	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11359	Remove beginning1	1.0.0	11336	heatmapper	1.3
-577	2013-10-21 10:42:00	11514	Remove beginning1	1.0.0	11338	heatmapper	1.3
-577	2013-10-21 10:42:00	11466	Remove beginning1	1.0.0	11339	heatmapper	1.3
-577	2013-10-21 10:42:00	11411	Remove beginning1	1.0.0	11340	heatmapper	1.3
-577	2013-10-21 10:42:00	11409	heatmapper	1.3	11343	heatmapper	1.3
-577	2013-10-21 10:42:00	11505	heatmapper	1.3	11344	Filter1	1.1.0
-577	2013-10-21 10:42:00	11506	heatmapper	1.3	11345	Filter1	1.1.0
-577	2013-10-21 10:42:00	11507	heatmapper	1.3	11346	Filter1	1.1.0
-577	2013-10-21 10:42:00	11508	heatmapper	1.3	11347	Filter1	1.1.0
-577	2013-10-21 10:42:00	11503	heatmapper	1.3	11350	Filter1	1.1.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11352	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11354	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11356	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11357	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11478	Remove_ending	1.0.0	11359	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11360	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11454	Cut1	1.0.2	11361	Filter1	1.1.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11362	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11533	heatmapper	1.3	11362	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11489	Cut1	1.0.2	11363	cat1	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11364	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11365	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11438	Remove beginning1	1.0.0	11368	heatmapper	1.3
-577	2013-10-21 10:42:00	11285	Remove beginning1	1.0.0	11374	heatmapper	1.3
-577	2013-10-21 10:42:00	11423	Remove beginning1	1.0.0	11377	heatmapper	1.3
-577	2013-10-21 10:42:00	11252	Remove beginning1	1.0.0	11380	heatmapper	1.3
-577	2013-10-21 10:42:00	11267	Remove beginning1	1.0.0	11381	heatmapper	1.3
-577	2013-10-21 10:42:00	11374	heatmapper	1.3	11382	Filter1	1.1.0
-577	2013-10-21 10:42:00	11377	heatmapper	1.3	11383	Filter1	1.1.0
-577	2013-10-21 10:42:00	11448	heatmapper	1.3	11384	Filter1	1.1.0
-577	2013-10-21 10:42:00	11445	heatmapper	1.3	11385	Filter1	1.1.0
-577	2013-10-21 10:42:00	11376	heatmapper	1.3	11388	Filter1	1.1.0
-577	2013-10-21 10:42:00	11435	heatmapper	1.3	11389	Filter1	1.1.0
-577	2013-10-21 10:42:00	11447	heatmapper	1.3	11391	Filter1	1.1.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11392	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11280	Paste1	1.0.0	11393	Cut1	1.0.2
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11394	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11396	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11300	heatmapper	1.3	11403	Filter1	1.1.0
-577	2013-10-21 10:42:00	11301	heatmapper	1.3	11404	Filter1	1.1.0
-577	2013-10-21 10:42:00	11302	heatmapper	1.3	11405	Filter1	1.1.0
-577	2013-10-21 10:42:00	11259	heatmapper	1.3	11407	Filter1	1.1.0
-577	2013-10-21 10:42:00	11482	Remove beginning1	1.0.0	11409	heatmapper	1.3
-577	2013-10-21 10:42:00	11487	Remove_ending	1.0.0	11412	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11254	Remove_ending	1.0.0	11414	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11415	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11418	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11419	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11367	Remove_ending	1.0.0	11420	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11366	Remove_ending	1.0.0	11421	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11488	Remove_ending	1.0.0	11423	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11392	Remove_ending	1.0.0	11425	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11427	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11253	Remove_ending	1.0.0	11431	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11292	Remove_ending	1.0.0	11432	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11433	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11362	Remove_ending	1.0.0	11434	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11473	Remove beginning1	1.0.0	11436	heatmapper	1.3
-577	2013-10-21 10:42:00	11484	Remove_ending	1.0.0	11437	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11485	Remove_ending	1.0.0	11438	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11439	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11440	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11468	Remove beginning1	1.0.0	11441	heatmapper	1.3
-577	2013-10-21 10:42:00	11471	Remove beginning1	1.0.0	11448	heatmapper	1.3
-577	2013-10-21 10:42:00	11455	cshl_word_list_grep	1.0.0	11450	Cut1	1.0.2
-577	2013-10-21 10:42:00	11457	cshl_word_list_grep	1.0.0	11452	Cut1	1.0.2
-577	2013-10-21 10:42:00	11270	Filter1	1.1.0	11455	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11271	Filter1	1.1.0	11455	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11277	Filter1	1.1.0	11455	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11385	Filter1	1.1.0	11455	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11386	Filter1	1.1.0	11455	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11275	cshl_word_list_grep	1.0.0	11456	Cut1	1.0.2
-577	2013-10-21 10:42:00	11490	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11491	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11492	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11493	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11494	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11495	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11496	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11497	Filter1	1.1.0	11457	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11382	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11383	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11384	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11389	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11391	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11498	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11499	Filter1	1.1.0	11458	cshl_word_list_grep	1.0.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11460	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11393	Cut1	1.0.2	11464	cat1	1.0.0
-577	2013-10-21 10:42:00	11249	Remove_ending	1.0.0	11465	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11248	Remove_ending	1.0.0	11466	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11247	Remove_ending	1.0.0	11467	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11246	Remove_ending	1.0.0	11468	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11245	Remove_ending	1.0.0	11469	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11244	Remove_ending	1.0.0	11470	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11256	Remove_ending	1.0.0	11471	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11433	Remove_ending	1.0.0	11473	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11427	Remove_ending	1.0.0	11474	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11287	Cut1	1.0.2	11475	cat1	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11476	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11303	Remove_ending	1.0.0	11480	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11481	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11483	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11484	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11485	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11486	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11464	cat1	1.0.0	11487	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11488	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11343	heatmapper	1.3	11491	Filter1	1.1.0
-577	2013-10-21 10:42:00	11369	heatmapper	1.3	11492	Filter1	1.1.0
-577	2013-10-21 10:42:00	11341	heatmapper	1.3	11493	Filter1	1.1.0
-577	2013-10-21 10:42:00	11379	heatmapper	1.3	11494	Filter1	1.1.0
-577	2013-10-21 10:42:00	11368	heatmapper	1.3	11495	Filter1	1.1.0
-577	2013-10-21 10:42:00	11381	heatmapper	1.3	11496	Filter1	1.1.0
-577	2013-10-21 10:42:00	11378	heatmapper	1.3	11497	Filter1	1.1.0
-577	2013-10-21 10:42:00	11375	heatmapper	1.3	11498	Filter1	1.1.0
-577	2013-10-21 10:42:00	11479	Cut1	1.0.2	11502	cat1	1.0.0
-577	2013-10-21 10:42:00	11511	Remove beginning1	1.0.0	11504	heatmapper	1.3
-577	2013-10-21 10:42:00	11480	Remove beginning1	1.0.0	11506	heatmapper	1.3
-577	2013-10-21 10:42:00	11395	Remove beginning1	1.0.0	11508	heatmapper	1.3
-577	2013-10-21 10:42:00	11414	Remove beginning1	1.0.0	11510	heatmapper	1.3
-577	2013-10-21 10:42:00	11291	Remove_ending	1.0.0	11511	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11531	Remove_ending	1.0.0	11512	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11251	Remove_ending	1.0.0	11514	Remove beginning1	1.0.0
-577	2013-10-21 10:42:00	11265	heatmapper	1.3	11515	Filter1	1.1.0
-577	2013-10-21 10:42:00	11266	heatmapper	1.3	11516	Filter1	1.1.0
-577	2013-10-21 10:42:00	11261	heatmapper	1.3	11517	Filter1	1.1.0
-577	2013-10-21 10:42:00	11262	heatmapper	1.3	11518	Filter1	1.1.0
-577	2013-10-21 10:42:00	11263	heatmapper	1.3	11519	Filter1	1.1.0
-577	2013-10-21 10:42:00	11264	heatmapper	1.3	11520	Filter1	1.1.0
-577	2013-10-21 10:42:00	11257	heatmapper	1.3	11521	Filter1	1.1.0
-577	2013-10-21 10:42:00	11258	heatmapper	1.3	11522	Filter1	1.1.0
-577	2013-10-21 10:42:00	11510	heatmapper	1.3	11524	Filter1	1.1.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11526	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11475	cat1	1.0.0	11527	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11528	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11363	cat1	1.0.0	11529	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11530	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11523	cat1	1.0.0	11532	Remove_ending	1.0.0
-577	2013-10-21 10:42:00	11257	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11258	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11259	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11261	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11262	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11263	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11264	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11265	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11266	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11290	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11293	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11294	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11300	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11301	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11302	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11306	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11337	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11341	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11342	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11343	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11349	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11368	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11369	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11374	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11375	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11376	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11377	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11378	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11379	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11381	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11409	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11435	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11444	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11445	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11447	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11448	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11459	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11503	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11505	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11506	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11507	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11508	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11510	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11533	heatmapper	1.3	11536		
-577	2013-10-21 10:42:00	11275	cshl_word_list_grep	1.0.0	11537		
-577	2013-10-21 10:42:00	11455	cshl_word_list_grep	1.0.0	11537		
-577	2013-10-21 10:42:00	11457	cshl_word_list_grep	1.0.0	11537		
-577	2013-10-21 10:42:00	11281	Filter1	1.1.0	11538		
-577	2013-10-21 10:42:00	11283	Filter1	1.1.0	11538		
-577	2013-10-21 10:42:00	11361	Filter1	1.1.0	11538		
-577	2013-10-21 10:42:00	11426	Filter1	1.1.0	11538		
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11540	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11541	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11542	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11543	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11544	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11545	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11546	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11547	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11549	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11550	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11798	cat1	1.0.0	11551	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11552	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11625	Remove beginning1	1.0.0	11554	heatmapper	1.3
-578	2013-10-21 10:57:00	11631	Remove beginning1	1.0.0	11556	heatmapper	1.3
-578	2013-10-21 10:57:00	11621	Remove beginning1	1.0.0	11557	heatmapper	1.3
-578	2013-10-21 10:57:00	11634	heatmapper	1.3	11565	Filter1	1.1.0
-578	2013-10-21 10:57:00	11635	heatmapper	1.3	11566	Filter1	1.1.0
-578	2013-10-21 10:57:00	11603	Filter1	1.1.0	11568	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11604	Filter1	1.1.0	11568	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11605	Filter1	1.1.0	11568	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11607	Filter1	1.1.0	11568	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11611	Filter1	1.1.0	11568	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11612	Filter1	1.1.0	11568	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11695	Filter1	1.1.0	11569	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11697	Filter1	1.1.0	11569	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11698	Filter1	1.1.0	11569	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11699	Filter1	1.1.0	11569	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11700	Filter1	1.1.0	11569	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11701	Filter1	1.1.0	11569	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11703	Filter1	1.1.0	11570	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11811	Filter1	1.1.0	11570	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11812	Filter1	1.1.0	11570	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11813	Filter1	1.1.0	11570	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11816	Filter1	1.1.0	11570	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11643	Filter1	1.1.0	11571	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11820	Filter1	1.1.0	11571	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11821	Filter1	1.1.0	11571	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11711	Remove_ending	1.0.0	11572	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11618	Paste1	1.0.0	11576	Paste1	1.0.0
-578	2013-10-21 10:57:00	11712	Remove_ending	1.0.0	11580	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11661	Remove_ending	1.0.0	11581	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11616	Paste1	1.0.0	11583	Cut1	1.0.2
-578	2013-10-21 10:57:00	11618	Paste1	1.0.0	11584	Cut1	1.0.2
-578	2013-10-21 10:57:00	11576	Paste1	1.0.0	11585	Paste1	1.0.0
-578	2013-10-21 10:57:00	11713	Remove beginning1	1.0.0	11586	heatmapper	1.3
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11587	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11716	Remove beginning1	1.0.0	11589	heatmapper	1.3
-578	2013-10-21 10:57:00	11724	Remove beginning1	1.0.0	11593	heatmapper	1.3
-578	2013-10-21 10:57:00	11720	Remove beginning1	1.0.0	11594	heatmapper	1.3
-578	2013-10-21 10:57:00	11628	Remove beginning1	1.0.0	11598	heatmapper	1.3
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11599	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11600	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11735	Remove_ending	1.0.0	11601	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11602	heatmapper	1.3	11608	Filter1	1.1.0
-578	2013-10-21 10:57:00	11633	heatmapper	1.3	11609	Filter1	1.1.0
-578	2013-10-21 10:57:00	11616	Paste1	1.0.0	11618	Paste1	1.0.0
-578	2013-10-21 10:57:00	11652	Remove_ending	1.0.0	11619	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11822	Remove_ending	1.0.0	11620	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11650	Remove_ending	1.0.0	11625	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11714	Remove_ending	1.0.0	11628	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11690	Remove_ending	1.0.0	11629	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11660	Remove_ending	1.0.0	11630	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11656	Remove_ending	1.0.0	11631	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11655	Remove beginning1	1.0.0	11632	heatmapper	1.3
-578	2013-10-21 10:57:00	11693	Remove beginning1	1.0.0	11633	heatmapper	1.3
-578	2013-10-21 10:57:00	11762	Remove beginning1	1.0.0	11635	heatmapper	1.3
-578	2013-10-21 10:57:00	11705	heatmapper	1.3	11639	heatmapper	1.3
-578	2013-10-21 10:57:00	11801	heatmapper	1.3	11640	Filter1	1.1.0
-578	2013-10-21 10:57:00	11802	heatmapper	1.3	11641	Filter1	1.1.0
-578	2013-10-21 10:57:00	11803	heatmapper	1.3	11642	Filter1	1.1.0
-578	2013-10-21 10:57:00	11804	heatmapper	1.3	11643	Filter1	1.1.0
-578	2013-10-21 10:57:00	11809	Remove beginning1	1.0.0	11645	heatmapper	1.3
-578	2013-10-21 10:57:00	11799	heatmapper	1.3	11646	Filter1	1.1.0
-578	2013-10-21 10:57:00	11828	Remove_ending	1.0.0	11649	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11652	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11750	Cut1	1.0.2	11657	Filter1	1.1.0
-578	2013-10-21 10:57:00	11785	Cut1	1.0.2	11659	cat1	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11661	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11734	Remove beginning1	1.0.0	11664	heatmapper	1.3
-578	2013-10-21 10:57:00	11709	Remove beginning1	1.0.0	11665	heatmapper	1.3
-578	2013-10-21 10:57:00	11581	Remove beginning1	1.0.0	11670	heatmapper	1.3
-578	2013-10-21 10:57:00	11672	heatmapper	1.3	11684	Filter1	1.1.0
-578	2013-10-21 10:57:00	11732	heatmapper	1.3	11686	Filter1	1.1.0
-578	2013-10-21 10:57:00	11743	heatmapper	1.3	11687	Filter1	1.1.0
-578	2013-10-21 10:57:00	11576	Paste1	1.0.0	11689	Cut1	1.0.2
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11692	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11773	Remove_ending	1.0.0	11693	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11592	heatmapper	1.3	11695	Filter1	1.1.0
-578	2013-10-21 10:57:00	11598	heatmapper	1.3	11701	Filter1	1.1.0
-578	2013-10-21 10:57:00	11556	heatmapper	1.3	11702	Filter1	1.1.0
-578	2013-10-21 10:57:00	11555	heatmapper	1.3	11703	Filter1	1.1.0
-578	2013-10-21 10:57:00	11779	Remove_ending	1.0.0	11704	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11777	Remove_ending	1.0.0	11706	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11550	Remove_ending	1.0.0	11710	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11711	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11712	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11663	Remove_ending	1.0.0	11716	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11662	Remove_ending	1.0.0	11717	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11669	Remove_ending	1.0.0	11718	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11723	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11756	Remove_ending	1.0.0	11725	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11648	Remove_ending	1.0.0	11726	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11588	Remove_ending	1.0.0	11728	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11729	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11572	Remove beginning1	1.0.0	11731	heatmapper	1.3
-578	2013-10-21 10:57:00	11761	Remove beginning1	1.0.0	11738	heatmapper	1.3
-578	2013-10-21 10:57:00	11768	Remove beginning1	1.0.0	11741	heatmapper	1.3
-578	2013-10-21 10:57:00	11765	Remove beginning1	1.0.0	11742	heatmapper	1.3
-578	2013-10-21 10:57:00	11770	Remove beginning1	1.0.0	11743	heatmapper	1.3
-578	2013-10-21 10:57:00	11767	Remove beginning1	1.0.0	11744	heatmapper	1.3
-578	2013-10-21 10:57:00	11751	cshl_word_list_grep	1.0.0	11746	Cut1	1.0.2
-578	2013-10-21 10:57:00	11753	cshl_word_list_grep	1.0.0	11748	Cut1	1.0.2
-578	2013-10-21 10:57:00	11569	cshl_word_list_grep	1.0.0	11750	Cut1	1.0.2
-578	2013-10-21 10:57:00	11564	Filter1	1.1.0	11751	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11681	Filter1	1.1.0	11751	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11682	Filter1	1.1.0	11751	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11683	Filter1	1.1.0	11751	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11610	Filter1	1.1.0	11753	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11788	Filter1	1.1.0	11753	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11790	Filter1	1.1.0	11753	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11791	Filter1	1.1.0	11753	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11793	Filter1	1.1.0	11753	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11678	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11679	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11680	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11684	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11686	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11687	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11794	Filter1	1.1.0	11754	cshl_word_list_grep	1.0.0
-578	2013-10-21 10:57:00	11622	Remove beginning1	1.0.0	11755	heatmapper	1.3
-578	2013-10-21 10:57:00	11627	Remove beginning1	1.0.0	11757	heatmapper	1.3
-578	2013-10-21 10:57:00	11545	Remove_ending	1.0.0	11761	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11544	Remove_ending	1.0.0	11762	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11543	Remove_ending	1.0.0	11763	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11542	Remove_ending	1.0.0	11764	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11541	Remove_ending	1.0.0	11765	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11552	Remove_ending	1.0.0	11767	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11583	Cut1	1.0.2	11771	cat1	1.0.0
-578	2013-10-21 10:57:00	11585	Paste1	1.0.0	11775	Cut1	1.0.2
-578	2013-10-21 10:57:00	11599	Remove_ending	1.0.0	11776	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11758	Remove_ending	1.0.0	11778	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11784	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11585	Paste1	1.0.0	11785	Cut1	1.0.2
-578	2013-10-21 10:57:00	11664	heatmapper	1.3	11791	Filter1	1.1.0
-578	2013-10-21 10:57:00	11677	heatmapper	1.3	11792	Filter1	1.1.0
-578	2013-10-21 10:57:00	11674	heatmapper	1.3	11793	Filter1	1.1.0
-578	2013-10-21 10:57:00	11671	heatmapper	1.3	11794	Filter1	1.1.0
-578	2013-10-21 10:57:00	11676	heatmapper	1.3	11795	Filter1	1.1.0
-578	2013-10-21 10:57:00	11748	Cut1	1.0.2	11796	Filter1	1.1.0
-578	2013-10-21 10:57:00	11752	Cut1	1.0.2	11797	Filter1	1.1.0
-578	2013-10-21 10:57:00	11775	Cut1	1.0.2	11798	cat1	1.0.0
-578	2013-10-21 10:57:00	11808	Remove beginning1	1.0.0	11799	heatmapper	1.3
-578	2013-10-21 10:57:00	11710	Remove beginning1	1.0.0	11806	heatmapper	1.3
-578	2013-10-21 10:57:00	11827	Remove_ending	1.0.0	11808	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11547	Remove_ending	1.0.0	11810	Remove beginning1	1.0.0
-578	2013-10-21 10:57:00	11561	heatmapper	1.3	11811	Filter1	1.1.0
-578	2013-10-21 10:57:00	11562	heatmapper	1.3	11812	Filter1	1.1.0
-578	2013-10-21 10:57:00	11557	heatmapper	1.3	11813	Filter1	1.1.0
-578	2013-10-21 10:57:00	11558	heatmapper	1.3	11814	Filter1	1.1.0
-578	2013-10-21 10:57:00	11560	heatmapper	1.3	11816	Filter1	1.1.0
-578	2013-10-21 10:57:00	11553	heatmapper	1.3	11817	Filter1	1.1.0
-578	2013-10-21 10:57:00	11554	heatmapper	1.3	11818	Filter1	1.1.0
-578	2013-10-21 10:57:00	11582	Cut1	1.0.2	11819	cat1	1.0.0
-578	2013-10-21 10:57:00	11805	heatmapper	1.3	11821	Filter1	1.1.0
-578	2013-10-21 10:57:00	11659	cat1	1.0.0	11825	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11827	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11580	Remove beginning1	1.0.0	11829	heatmapper	1.3
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11830	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11617	cat1	1.0.0	11831	Remove_ending	1.0.0
-578	2013-10-21 10:57:00	11553	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11554	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11555	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11556	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11557	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11558	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11560	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11561	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11562	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11592	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11598	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11602	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11633	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11634	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11635	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11664	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11671	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11672	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11674	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11676	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11677	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11705	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11732	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11743	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11799	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11801	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11802	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11803	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11804	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11805	heatmapper	1.3	11832		
-578	2013-10-21 10:57:00	11569	cshl_word_list_grep	1.0.0	11833		
-578	2013-10-21 10:57:00	11751	cshl_word_list_grep	1.0.0	11833		
-578	2013-10-21 10:57:00	11753	cshl_word_list_grep	1.0.0	11833		
-578	2013-10-21 10:57:00	11577	Filter1	1.1.0	11834		
-578	2013-10-21 10:57:00	11654	Filter1	1.1.0	11834		
-578	2013-10-21 10:57:00	11722	Filter1	1.1.0	11834		
-578	2013-10-21 10:57:00	11797	Filter1	1.1.0	11834		
-581	2013-10-22 21:26:00	11934	Remove_ending	1.0.0	11900	Remove beginning1	1.0.0
-581	2013-10-22 21:26:00	11930	Remove_ending	1.0.0	11904	Remove beginning1	1.0.0
-581	2013-10-22 21:26:00	11929	Remove_ending	1.0.0	11905	Remove beginning1	1.0.0
-581	2013-10-22 21:26:00	11936	Remove_ending	1.0.0	11906	Remove beginning1	1.0.0
-581	2013-10-22 21:26:00	11931	Remove_ending	1.0.0	11907	Remove beginning1	1.0.0
-581	2013-10-22 21:26:00	11922	heatmapper	1.3	11909	Filter1	1.1.0
-581	2013-10-22 21:26:00	11924	heatmapper	1.3	11911	Filter1	1.1.0
-581	2013-10-22 21:26:00	11917	Cut1	1.0.2	11918	cat1	1.0.0
-581	2013-10-22 21:26:00	11903	Remove beginning1	1.0.0	11919	heatmapper	1.3
-581	2013-10-22 21:26:00	11905	Remove beginning1	1.0.0	11921	heatmapper	1.3
-581	2013-10-22 21:26:00	11904	Remove beginning1	1.0.0	11922	heatmapper	1.3
-581	2013-10-22 21:26:00	11899	Remove beginning1	1.0.0	11923	heatmapper	1.3
-581	2013-10-22 21:26:00	11900	Remove beginning1	1.0.0	11926	heatmapper	1.3
-581	2013-10-22 21:26:00	11907	Remove beginning1	1.0.0	11927	heatmapper	1.3
-581	2013-10-22 21:26:00	11910	Filter1	1.1.0	11937		
-581	2013-10-22 21:26:00	11913	Filter1	1.1.0	11937		
-581	2013-10-22 21:26:00	11916	Filter1	1.1.0	11937		
-581	2013-10-22 21:26:00	11922	heatmapper	1.3	11938		
-581	2013-10-22 21:26:00	11924	heatmapper	1.3	11938		
-584	2013-10-22 10:25:00	11966	Filter1	1.1.0	11963	Filter1	1.1.0
-584	2013-10-22 10:25:00	11968	Filter1	1.1.0	11963	Filter1	1.1.0
-584	2013-10-22 10:25:00	11969	Filter1	1.1.0	11963	Filter1	1.1.0
-584	2013-10-22 10:25:00	11970	Cut1	1.0.2	11965	Filter1	1.1.0
-584	2013-10-22 10:25:00	11972	Cut1	1.0.2	11967	Filter1	1.1.0
-584	2013-10-22 10:25:00	11977	Cut1	1.0.2	11968	Filter1	1.1.0
-584	2013-10-22 10:25:00	11974	Cut1	1.0.2	11969	Filter1	1.1.0
-584	2013-10-22 10:25:00	11979	cshl_word_list_grep	1.0.0	11970	Cut1	1.0.2
-584	2013-10-22 10:25:00	11981	cshl_word_list_grep	1.0.0	11972	Cut1	1.0.2
-584	2013-10-22 10:25:00	11978	cshl_word_list_grep	1.0.0	11973	Cut1	1.0.2
-584	2013-10-22 10:25:00	11980	cshl_word_list_grep	1.0.0	11975	Cut1	1.0.2
-584	2013-10-22 10:25:00	11962	cshl_word_list_grep	1.0.0	11976	Cut1	1.0.2
-584	2013-10-22 10:25:00	11962	cshl_word_list_grep	1.0.0	11982		
-584	2013-10-22 10:25:00	11978	cshl_word_list_grep	1.0.0	11982		
-584	2013-10-22 10:25:00	11979	cshl_word_list_grep	1.0.0	11982		
-584	2013-10-22 10:25:00	11980	cshl_word_list_grep	1.0.0	11982		
-584	2013-10-22 10:25:00	11981	cshl_word_list_grep	1.0.0	11982		
-604	2013-10-24 19:24:00	12198	bowtie2	0.2	12201		
-605	2014-02-28 15:14:00	12211	Remove_ending	1.0.0	12206	Remove beginning1	1.0.0
-605	2014-02-28 15:14:00	12233	Remove_ending	1.0.0	12207	Remove beginning1	1.0.0
-605	2014-02-28 15:14:00	12239	Remove_ending	1.0.0	12209	Remove beginning1	1.0.0
-605	2014-02-28 15:14:00	12234	Remove_ending	1.0.0	12210	Remove beginning1	1.0.0
-605	2014-02-28 15:14:00	12225	heatmapper	1.3	12212	Filter1	1.1.0
-605	2014-02-28 15:14:00	12229	heatmapper	1.3	12216	Filter1	1.1.0
-605	2014-02-28 15:14:00	12231	heatmapper	1.3	12218	Filter1	1.1.0
-605	2014-02-28 15:14:00	12230	heatmapper	1.3	12223	Filter1	1.1.0
-605	2014-02-28 15:14:00	12209	Remove beginning1	1.0.0	12227	heatmapper	1.3
-605	2014-02-28 15:14:00	12204	Remove beginning1	1.0.0	12228	heatmapper	1.3
-605	2014-02-28 15:14:00	12210	Remove beginning1	1.0.0	12230	heatmapper	1.3
-605	2014-02-28 15:14:00	12205	Remove beginning1	1.0.0	12231	heatmapper	1.3
-605	2014-02-28 15:14:00	12212	Filter1	1.1.0	12240		
-605	2014-02-28 15:14:00	12213	Filter1	1.1.0	12240		
-605	2014-02-28 15:14:00	12214	Filter1	1.1.0	12240		
-605	2014-02-28 15:14:00	12215	Filter1	1.1.0	12240		
-605	2014-02-28 15:14:00	12217	Filter1	1.1.0	12240		
-605	2014-02-28 15:14:00	12218	Filter1	1.1.0	12240		
-605	2014-02-28 15:14:00	12225	heatmapper	1.3	12241		
-605	2014-02-28 15:14:00	12229	heatmapper	1.3	12241		
-605	2014-02-28 15:14:00	12230	heatmapper	1.3	12241		
-605	2014-02-28 15:14:00	12231	heatmapper	1.3	12241		
-611	2013-10-25 07:31:00	12298	rmcontamination	0.1	12296		
-611	2013-10-25 07:31:00	12301	antismash	2.0.2.1	12300	prokaryotic_ncbi_submission	0.1.1
-619	2013-10-25 09:33:00	12370	antismash	2.0.2.1	12369	eukaryotic_ncbi_submission	0.1.2
-621	2013-10-27 07:31:00	12378	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3	0.3	12377	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/sed_wrapper/sed_stream_editor/0.0.1	0.0.1
-621	2013-10-27 07:31:00	12380	Grep1	1.0.1	12379	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_remIons/1.0	1
-621	2013-10-27 07:31:00	12383	Cut1	1.0.2	12382	mergeCols1	1.0.1
-621	2013-10-27 07:31:00	12384	Filter1	1.1.0	12383	Cut1	1.0.2
-621	2013-10-27 07:31:00	12393	Filter1	1.1.0	12389	toolshed.g2.bx.psu.edu/repos/bgruening/chemical_data_sources/ctb_pubchem_download_as_smiles/1.0.0	1.0.0
-621	2013-10-27 07:31:00	12394	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_change_title/0.0.1	0.0.1	12390	toolshed.g2.bx.psu.edu/repos/bgruening/chemical_data_sources/ctb_online_data_fetch/0.2	0.2
-621	2013-10-27 07:31:00	12398	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_compound_convert/0.1	0.1	12394	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_change_title/0.0.1	0.0.1
-621	2013-10-27 07:31:00	12403	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3	0.3	12399	addValue	1.0.0
-621	2013-10-27 07:31:00	12404	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3	0.3	12400	addValue	1.0.0
-621	2013-10-27 07:31:00	12381	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3	0.3	12401	addValue	1.0.0
-621	2013-10-27 07:31:00	12382	mergeCols1	1.0.1	12405	cat1	1.0.0
-625	2013-11-03 20:33:00	12448	Filter1		12442		
-625	2013-11-03 20:33:00	12459	cshl_word_list_grep		12443		
-625	2013-11-03 20:33:00	12460	cshl_word_list_grep		12443		
-625	2013-11-03 20:33:00	12461	cshl_word_list_grep		12444		
-625	2013-11-03 20:33:00	12449	Filter1		12447	Remove beginning1	
-625	2013-11-03 20:33:00	12452	sort1		12449	Filter1	
-625	2013-11-03 20:33:00	12454	Grouping1		12451	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	
-625	2013-11-03 20:33:00	12455	join1		12453	Grouping1	
-625	2013-11-03 20:33:00	12455	join1		12454	Grouping1	
-625	2013-11-03 20:33:00	12458	Filter1		12457	join1	
-625	2013-11-03 20:33:00	12459	cshl_word_list_grep		12457	join1	
-625	2013-11-03 20:33:00	12460	cshl_word_list_grep		12457	join1	
-625	2013-11-03 20:33:00	12461	cshl_word_list_grep		12457	join1	
-625	2013-11-03 20:33:00	12462	Filter1		12458	Filter1	
-634	2013-11-04 14:27:00	12553	Cut1	1.0.2	12551	join1	2.0.2
-634	2013-11-04 14:27:00	12556	Grouping1	2.0.0	12554	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-634	2013-11-04 14:27:00	12554	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	12555	Filter1	1.1.0
-634	2013-11-04 14:27:00	12557	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	12555	Filter1	1.1.0
-634	2013-11-04 14:27:00	12558	join1	2.0.2	12556	Grouping1	2.0.0
-634	2013-11-04 14:27:00	12559	Grouping1	2.0.0	12557	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-634	2013-11-04 14:27:00	12558	join1	2.0.2	12559	Grouping1	2.0.0
-634	2013-11-04 14:27:00	12554	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	12561		
-634	2013-11-04 14:27:00	12557	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	12563		
-635	2013-11-06 02:07:00	12567	blockbuster	0.1	12564	sort1	1.0.2
-635	2013-11-06 02:07:00	12564	sort1	1.0.2	12565	blockclust	0.1
-635	2013-11-06 02:07:00	12566	blockclust	0.1	12567	blockbuster	0.1
-638	2013-11-05 22:36:00	12580	cshl_word_list_grep	1.0.0	12575	Cut1	1.0.2
-638	2013-11-05 22:36:00	12581	cshl_word_list_grep	1.0.0	12576	Cut1	1.0.2
-638	2013-11-05 22:36:00	12584	Filter1	1.1.0	12583	Filter1	1.1.0
-638	2013-11-05 22:36:00	12586	Filter1	1.1.0	12583	Filter1	1.1.0
-638	2013-11-05 22:36:00	12587	Filter1	1.1.0	12583	Filter1	1.1.0
-638	2013-11-05 22:36:00	12575	Cut1	1.0.2	12584	Filter1	1.1.0
-638	2013-11-05 22:36:00	12576	Cut1	1.0.2	12585	Filter1	1.1.0
-638	2013-11-05 22:36:00	12580	cshl_word_list_grep	1.0.0	12588		
-638	2013-11-05 22:36:00	12581	cshl_word_list_grep	1.0.0	12588		
-638	2013-11-05 22:36:00	12583	Filter1	1.1.0	12589		
-644	2013-11-06 00:51:00	12627	sort1	1.0.2	12628	blockclust	0.1
-644	2013-11-06 00:51:00	12632	Extract genomic DNA 1	2.2.2	12629	blockclust	0.1
-646	2013-11-06 03:38:00	12642	Extract genomic DNA 1	2.2.2	12640	blockclust	0.1
-646	2013-11-06 03:38:00	12643	blockclust	0.1	12640	blockclust	0.1
-646	2013-11-06 03:38:00	12643	blockclust	0.1	12640	blockclust	0.1
-646	2013-11-06 03:38:00	12643	blockclust	0.1	12641	infernal_cmsearch	1.1.0.1
-646	2013-11-06 03:38:00	12641	infernal_cmsearch	1.1.0.1	12642	Extract genomic DNA 1	2.2.2
-647	2013-11-06 03:38:00	12645	blockclust	0.1	12646	blockbuster	0.1
-661	2013-11-08 15:36:00	12688	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_compound_convert/0.1	0.1	12687	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3	0.3
-664	2013-11-08 22:15:00	12695	samtools_rmdup	1.0.0	12696	tophat2	0.5
-668	2013-11-11 15:32:00	12713	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3		12712	fragmenter	
-668	2013-11-11 15:32:00	12714	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_compound_convert/0.1		12713	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3	
-669	2013-11-11 15:35:00	12716	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_compound_convert/0.1	0.1	12715	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_filter/1.0	1
-669	2013-11-11 15:35:00	12715	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_filter/1.0	1	12717	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_remSmall/1.0	1
-669	2013-11-11 15:35:00	12718	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_remIons/1.0	1	12719		
-670	2013-11-11 15:48:00	12722	toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_compound_convert/0.1	0.1	12721	bgchem_fragment_merger	0.1
-678	2013-11-13 09:31:00	12792	join1	2.0.2	12780	Cut1	1.0.2
-678	2013-11-13 09:31:00	12799	join1	2.0.2	12783	Cut1	1.0.2
-678	2013-11-13 09:31:00	12798	join1	2.0.2	12787	Cut1	1.0.2
-678	2013-11-13 09:31:00	12791	join1	2.0.2	12789	Cut1	1.0.2
-678	2013-11-13 09:31:00	12799	join1	2.0.2	12792	join1	2.0.2
-678	2013-11-13 09:31:00	12792	join1	2.0.2	12794	join1	2.0.2
-678	2013-11-13 09:31:00	12791	join1	2.0.2	12796	join1	2.0.2
-678	2013-11-13 09:31:00	12798	join1	2.0.2	12799	join1	2.0.2
-678	2013-11-13 09:31:00	12780	Cut1	1.0.2	12800		
-678	2013-11-13 09:31:00	12782	Cut1	1.0.2	12802		
-678	2013-11-13 09:31:00	12784	Cut1	1.0.2	12804		
-678	2013-11-13 09:31:00	12785	Cut1	1.0.2	12805		
-678	2013-11-13 09:31:00	12788	Cut1	1.0.2	12808		
-682	2013-11-13 13:42:00	12888	Paste1	1.0.0	12861	Cut1	1.0.2
-682	2013-11-13 13:42:00	12887	Paste1	1.0.0	12862	Cut1	1.0.2
-682	2013-11-13 13:42:00	12886	Paste1	1.0.0	12863	Cut1	1.0.2
-682	2013-11-13 13:42:00	12885	Paste1	1.0.0	12864	Cut1	1.0.2
-682	2013-11-13 13:42:00	12883	Paste1	1.0.0	12865	Cut1	1.0.2
-682	2013-11-13 13:42:00	12883	Paste1	1.0.0	12866	Cut1	1.0.2
-682	2013-11-13 13:42:00	12889	Paste1	1.0.0	12868	Cut1	1.0.2
-682	2013-11-13 13:42:00	12884	Paste1	1.0.0	12869	Cut1	1.0.2
-682	2013-11-13 13:42:00	12871	Paste1	1.0.0	12870	Cut1	1.0.2
-682	2013-11-13 13:42:00	12865	Cut1	1.0.2	12873	sort1	1.0.2
-682	2013-11-13 13:42:00	12868	Cut1	1.0.2	12874	sort1	1.0.2
-682	2013-11-13 13:42:00	12867	Cut1	1.0.2	12875	sort1	1.0.2
-682	2013-11-13 13:42:00	12861	Cut1	1.0.2	12877	sort1	1.0.2
-682	2013-11-13 13:42:00	12889	Paste1	1.0.0	12882	Paste1	1.0.0
-682	2013-11-13 13:42:00	12871	Paste1	1.0.0	12884	Paste1	1.0.0
-682	2013-11-13 13:42:00	12884	Paste1	1.0.0	12885	Paste1	1.0.0
-682	2013-11-13 13:42:00	12885	Paste1	1.0.0	12886	Paste1	1.0.0
-682	2013-11-13 13:42:00	12886	Paste1	1.0.0	12887	Paste1	1.0.0
-682	2013-11-13 13:42:00	12887	Paste1	1.0.0	12888	Paste1	1.0.0
-682	2013-11-13 13:42:00	12888	Paste1	1.0.0	12889	Paste1	1.0.0
-682	2013-11-13 13:42:00	12872	sort1	1.0.2	12890		
-682	2013-11-13 13:42:00	12874	sort1	1.0.2	12892		
-682	2013-11-13 13:42:00	12877	sort1	1.0.2	12895		
-682	2013-11-13 13:42:00	12878	sort1	1.0.2	12896		
-682	2013-11-13 13:42:00	12881	sort1	1.0.2	12899		
-685	2013-11-13 17:06:00	12930	bamCoverage_deepTools	1	12931	sam_merge2	1.1.2
-685	2013-11-13 17:06:00	12934	bowtie2	0.2	12932	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-685	2013-11-13 17:06:00	12934	bowtie2	0.2	12932	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1
-685	2013-11-13 17:06:00	12932	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	12938		
-685	2013-11-13 17:06:00	12932	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	12939		
-690	2013-11-13 21:03:00	12986	heatmapper	1.3	12984		
-690	2013-11-13 21:03:00	12986	heatmapper	1.3	12985		
-690	2013-11-13 21:03:00	12987	Cut1	1.0.2	12986	heatmapper	1.3
-696	2013-11-14 20:39:00	13090	Paste1	1.0.0	13085	Cut1	1.0.2
-696	2013-11-14 20:39:00	13090	Paste1	1.0.0	13087	Paste1	1.0.0
-696	2013-11-14 20:39:00	13094	Cut1	1.0.2	13091	heatmapper	1.3
-696	2013-11-14 20:39:00	13086	Cut1	1.0.2	13093	heatmapper	1.3
-696	2013-11-14 20:39:00	13092	heatmapper	1.3	13097		
-696	2013-11-14 20:39:00	13092	heatmapper	1.3	13098		
-697	2013-11-14 20:40:00	13105	Cut1	1.0.2	13102	heatmapper	1.3
-697	2013-11-14 20:40:00	13101	Cut1	1.0.2	13112	heatmapper	1.3
-697	2013-11-14 20:40:00	13103	Cut1	1.0.2	13114	heatmapper	1.3
-698	2013-11-15 21:05:00	13122	computeMatrix	1	13121	bamCoverage_deepTools	1
-698	2013-11-15 21:05:00	13126	heatmapper_deepTools	1	13122	computeMatrix	1
-698	2013-11-15 21:05:00	13122	computeMatrix	1	13123		
-698	2013-11-15 21:05:00	13128	correctGCBias	1.0.1	13124		
-698	2013-11-15 21:05:00	13130	bamFingerprint	1	13124		
-698	2013-11-15 21:05:00	13130	bamFingerprint	1	13124		
-698	2013-11-15 21:05:00	13128	correctGCBias	1.0.1	13129	deeptools_computeGCBias	1.0.1
-700	2013-11-15 21:24:00	13135	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_computeMatrix/1.0	1	13132		
-700	2013-11-15 21:24:00	13136	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_bamCoverage/1.0	1	13133		
-700	2013-11-15 21:24:00	13135	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_computeMatrix/1.0	1	13133		
-700	2013-11-15 21:24:00	13137	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_bamCompare/1.0	1	13133		
-700	2013-11-15 21:24:00	13137	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_bamCompare/1.0	1	13134		
-700	2013-11-15 21:24:00	13143	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_correctGCBias/1.0.1	1.0.1	13134		
-700	2013-11-15 21:24:00	13141	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_heatmapper/1.0	1	13135	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_computeMatrix/1.0	1
-700	2013-11-15 21:24:00	13143	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_correctGCBias/1.0.1	1.0.1	13139	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_computeGCBias/1.0.1	1.0.1
-702	2013-11-15 22:23:00	13161	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	13160	Cut1	1.0.2
-702	2013-11-15 22:23:00	13161	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	13162		
-702	2013-11-15 22:23:00	13160	Cut1	1.0.2	13165	addValue	1.0.0
-703	2013-11-17 19:53:00	13174	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3	13169		
-703	2013-11-17 19:53:00	13174	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3	13170		
-703	2013-11-17 19:53:00	13175	toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0	1.0.0	13173	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3
-703	2013-11-17 19:53:00	13176	toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0	1.0.0	13174	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3
-703	2013-11-17 19:53:00	13177	toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.2	1.1.2	13175	toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0	1.0.0
-703	2013-11-17 19:53:00	13182	toolshed.g2.bx.psu.edu/repos/blankenberg/naive_variant_caller/naive_variant_caller/0.0.1		13181	toolshed.g2.bx.psu.edu/repos/devteam/sam_merge/sam_merge2/1.1.2	1.1.2
-703	2013-11-17 19:53:00	13183	toolshed.g2.bx.psu.edu/repos/devteam/freebayes/freebayes/0.0.3	0.0.3	13181	toolshed.g2.bx.psu.edu/repos/devteam/sam_merge/sam_merge2/1.1.2	1.1.2
-703	2013-11-17 19:53:00	13185	Filter1	1.1.0	13184	toolshed.g2.bx.psu.edu/repos/nick/allele_counts/allele_counts_1/1.1	
-713	2013-11-24 11:36:00	13266	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3	13260		
-713	2013-11-24 11:36:00	13266	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3	13261		
-713	2013-11-24 11:36:00	13267	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3	13262		
-713	2013-11-24 11:36:00	13267	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3	13263		
-713	2013-11-24 11:36:00	13268	toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0	1.0.0	13266	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3
-713	2013-11-24 11:36:00	13269	toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0	1.0.0	13267	toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3	1.2.3
-713	2013-11-24 11:36:00	13270	toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.2	1.1.2	13268	toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0	1.0.0
-713	2013-11-24 11:36:00	13272	toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ARRG/1.56.0	1.56.0	13270	toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.2	1.1.2
-713	2013-11-24 11:36:00	13273	toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ARRG/1.56.0	1.56.0	13271	toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.2	1.1.2
-713	2013-11-24 11:36:00	13276	toolshed.g2.bx.psu.edu/repos/devteam/freebayes/freebayes/0.0.3	0.0.3	13274	toolshed.g2.bx.psu.edu/repos/devteam/sam_merge/sam_merge2/1.1.2	1.1.2
-717	2013-12-09 21:29:00	13316	cor2	1.0.0	13317	Cut1	1.0.2
-717	2013-12-09 21:29:00	13320	Grouping1	2.0.0	13319	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-717	2013-12-09 21:29:00	13318	Filter1	1.1.0	13322		
-718	2013-12-10 08:51:00	13328	addValue	1.0.0	13326	Cut1	1.0.2
-718	2013-12-10 08:51:00	13329	Cut1	1.0.2	13327	Remove beginning1	1.0.0
-718	2013-12-10 08:51:00	13331	Paste1	1.0.0	13328	addValue	1.0.0
-718	2013-12-10 08:51:00	13331	Paste1	1.0.0	13329	Cut1	1.0.2
-718	2013-12-10 08:51:00	13325	Grep1	1.0.1	13332		
-734	2014-01-13 08:35:00	13513	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	13514	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7
-734	2014-01-13 08:35:00	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	13515	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7
-734	2014-01-13 08:35:00	13514	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	13516	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7
-734	2014-01-13 08:35:00	13514	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-734	2014-01-13 08:35:00	13516	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-734	2014-01-13 08:35:00	13516	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13518		
-734	2014-01-13 08:35:00	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	13518		
-734	2014-01-13 08:35:00	13516	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13519		
-734	2014-01-13 08:35:00	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	13519		
-734	2014-01-13 08:35:00	13516	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13520		
-734	2014-01-13 08:35:00	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	13520		
-734	2014-01-13 08:35:00	13517	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	13521		
-743	2014-02-27 10:34:00	13631	cshl_word_list_grep	1.0.0	13625	Cut1	1.0.2
-743	2014-02-27 10:34:00	13633	cshl_word_list_grep	1.0.0	13627	Cut1	1.0.2
-743	2014-02-27 10:34:00	13634	cshl_word_list_grep	1.0.0	13628	Cut1	1.0.2
-743	2014-02-27 10:34:00	13635	cshl_word_list_grep	1.0.0	13630	Cut1	1.0.2
-743	2014-02-27 10:34:00	13639	Filter1	1.1.0	13637	Filter1	1.1.0
-743	2014-02-27 10:34:00	13640	Filter1	1.1.0	13637	Filter1	1.1.0
-743	2014-02-27 10:34:00	13641	Filter1	1.1.0	13637	Filter1	1.1.0
-743	2014-02-27 10:34:00	13626	Cut1	1.0.2	13639	Filter1	1.1.0
-743	2014-02-27 10:34:00	13628	Cut1	1.0.2	13641	Filter1	1.1.0
-743	2014-02-27 10:34:00	13629	cshl_word_list_grep	1.0.0	13642	Cut1	1.0.2
-743	2014-02-27 10:34:00	13629	cshl_word_list_grep	1.0.0	13644		
-743	2014-02-27 10:34:00	13631	cshl_word_list_grep	1.0.0	13644		
-743	2014-02-27 10:34:00	13633	cshl_word_list_grep	1.0.0	13644		
-743	2014-02-27 10:34:00	13634	cshl_word_list_grep	1.0.0	13644		
-743	2014-02-27 10:34:00	13635	cshl_word_list_grep	1.0.0	13644		
-743	2014-02-27 10:34:00	13637	Filter1	1.1.0	13645		
-749	2014-02-03 15:45:00	13705	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	13703	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-749	2014-02-03 15:45:00	13706	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13703	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-749	2014-02-03 15:45:00	13705	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	13706	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7
-749	2014-02-03 15:45:00	13707	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	0.0.7	13708	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7
-749	2014-02-03 15:45:00	13704	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7	13709		
-749	2014-02-03 15:45:00	13706	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13709		
-749	2014-02-03 15:45:00	13704	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7	13710		
-749	2014-02-03 15:45:00	13704	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7	13711		
-749	2014-02-03 15:45:00	13706	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13711		
-749	2014-02-03 15:45:00	13706	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	13712		
-760	2014-02-04 19:19:00	13755	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	0.0.7	13759		
-765	2014-02-05 18:03:00	13788	toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/0.0.6	0.0.6	13786	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-765	2014-02-05 18:03:00	13789	bamCoverage_deepTools	1	13786	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-765	2014-02-05 18:03:00	13786	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0	13787	tophat2	0.6
-765	2014-02-05 18:03:00	13785	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	13791		
-765	2014-02-05 18:03:00	13785	toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1	0.2.8.1	13792		
-765	2014-02-05 18:03:00	13788	toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/0.0.6	0.0.6	13794		
-775	2014-02-06 20:19:00	13846	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/3.4	3.4	13847		
-783	2014-02-10 15:01:00	13927	bowtie2		13895		
-783	2014-02-10 15:01:00	13928	bowtie2		13895		
-783	2014-02-10 15:01:00	13927	bowtie2		13896		
-783	2014-02-10 15:01:00	13928	bowtie2		13896		
-783	2014-02-10 15:01:00	13929	bowtie2		13897		
-783	2014-02-10 15:01:00	13929	bowtie2		13898		
-783	2014-02-10 15:01:00	13931	bowtie2		13899		
-783	2014-02-10 15:01:00	13932	bowtie2		13899		
-783	2014-02-10 15:01:00	13931	bowtie2		13900		
-783	2014-02-10 15:01:00	13932	bowtie2		13900		
-783	2014-02-10 15:01:00	13948	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13901		
-783	2014-02-10 15:01:00	13970	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13901		
-783	2014-02-10 15:01:00	13973	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7		13901		
-783	2014-02-10 15:01:00	13974	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7		13901		
-783	2014-02-10 15:01:00	13971	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13901		
-783	2014-02-10 15:01:00	13972	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13901		
-783	2014-02-10 15:01:00	13970	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13902		
-783	2014-02-10 15:01:00	13973	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7		13902		
-783	2014-02-10 15:01:00	13974	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7		13902		
-783	2014-02-10 15:01:00	13971	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13902		
-783	2014-02-10 15:01:00	13972	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13902		
-783	2014-02-10 15:01:00	13942	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0		13903		
-783	2014-02-10 15:01:00	13948	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13903		
-783	2014-02-10 15:01:00	13970	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13903		
-783	2014-02-10 15:01:00	13973	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7		13903		
-783	2014-02-10 15:01:00	13974	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7		13903		
-783	2014-02-10 15:01:00	13971	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13903		
-783	2014-02-10 15:01:00	13972	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13903		
-783	2014-02-10 15:01:00	13934	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0		13916	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	
-783	2014-02-10 15:01:00	13934	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0		13917	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	
-783	2014-02-10 15:01:00	13936	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_filtration/0.0.7		13923	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_filtration/0.0.7	
-783	2014-02-10 15:01:00	13937	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1		13924	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	
-783	2014-02-10 15:01:00	13951	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1		13925	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	
-783	2014-02-10 15:01:00	13937	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1		13926	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	
-783	2014-02-10 15:01:00	13940	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0		13932	bowtie2	
-783	2014-02-10 15:01:00	13942	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0		13934	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	
-783	2014-02-10 15:01:00	13943	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4		13937	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1	
-783	2014-02-10 15:01:00	13944	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4		13937	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1	
-783	2014-02-10 15:01:00	13945	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4		13937	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1	
-783	2014-02-10 15:01:00	13946	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4		13937	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1	
-783	2014-02-10 15:01:00	13948	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13939	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-783	2014-02-10 15:01:00	13968	cshl_word_list_grep		13941	Cut1	
-783	2014-02-10 15:01:00	13951	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1		13946	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4	
-783	2014-02-10 15:01:00	13964	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7		13955	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	
-783	2014-02-10 15:01:00	13964	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7		13959	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	
-783	2014-02-10 15:01:00	13968	cshl_word_list_grep		13961	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4	
-783	2014-02-10 15:01:00	13970	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13962	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	
-783	2014-02-10 15:01:00	13973	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7		13962	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	
-783	2014-02-10 15:01:00	13971	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13962	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	
-783	2014-02-10 15:01:00	13972	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7		13962	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	
-783	2014-02-10 15:01:00	13973	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7		13970	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	
-783	2014-02-10 15:01:00	13974	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7		13973	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	
-785	2014-02-11 08:40:00	14019	fastqc	0.52	14011		
-785	2014-02-11 08:40:00	14023	bowtie2	0.2	14012		
-785	2014-02-11 08:40:00	14023	bowtie2	0.2	14013		
-785	2014-02-11 08:40:00	14022	fastqc	0.52	14013		
-785	2014-02-11 08:40:00	14025	fastqc	0.52	14015		
-785	2014-02-11 08:40:00	14027	fastqc	0.52	14016		
-785	2014-02-11 08:40:00	14029	bowtie2	0.2	14016		
-785	2014-02-11 08:40:00	14029	bowtie2	0.2	14017		
-785	2014-02-11 08:40:00	14032	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0	14023	bowtie2	0.2
-785	2014-02-11 08:40:00	14033	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0	1.0.0	14023	bowtie2	0.2
-785	2014-02-11 08:40:00	14035	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0	1.0.0	14026	bowtie2	0.2
-785	2014-02-11 08:40:00	14036	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0	14029	bowtie2	0.2
-785	2014-02-11 08:40:00	14038	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0	1.0.0	14030	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-785	2014-02-11 08:40:00	14043	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2	2.0.10.2	14034	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-785	2014-02-11 08:40:00	14043	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2	2.0.10.2	14036	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-793	2014-02-12 22:15:00	14059	openms_id_mapper	0.1.0	14057	openms_id_file_converter	0.1.0
-793	2014-02-12 22:15:00	14059	openms_id_mapper	0.1.0	14058	silac_analyzer	0.1.0
-795	2014-02-17 10:47:00	14071	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0	14069	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2
-795	2014-02-17 10:47:00	14068	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	14072	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7
-795	2014-02-17 10:47:00	14068	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	14073	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-795	2014-02-17 10:47:00	14072	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	14073	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-795	2014-02-17 10:47:00	14069	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2	14074		
-795	2014-02-17 10:47:00	14069	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2	14075		
-795	2014-02-17 10:47:00	14072	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	14076		
-795	2014-02-17 10:47:00	14072	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	14077		
-795	2014-02-17 10:47:00	14072	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	14078		
-796	2014-02-17 19:35:00	14089	bowtie2		14079		
-796	2014-02-17 19:35:00	14088	fastqc		14080		
-796	2014-02-17 19:35:00	14089	bowtie2		14080		
-796	2014-02-17 19:35:00	14091	fastqc		14082		
-796	2014-02-17 19:35:00	14093	fastqc		14083		
-796	2014-02-17 19:35:00	14095	bowtie2		14083		
-796	2014-02-17 19:35:00	14094	fastqc		14084		
-796	2014-02-17 19:35:00	14095	bowtie2		14084		
-796	2014-02-17 19:35:00	14096	fastqc		14085		
-796	2014-02-17 19:35:00	14097	fastqc		14086		
-796	2014-02-17 19:35:00	14100	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14089	bowtie2	
-796	2014-02-17 19:35:00	14102	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14092	bowtie2	
-796	2014-02-17 19:35:00	14103	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0		14095	bowtie2	
-796	2014-02-17 19:35:00	14104	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14095	bowtie2	
-796	2014-02-17 19:35:00	14106	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14098	bowtie2	
-796	2014-02-17 19:35:00	14107	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14099	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-796	2014-02-17 19:35:00	14109	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		14099	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-796	2014-02-17 19:35:00	14108	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14101	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-796	2014-02-17 19:35:00	14109	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		14101	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-796	2014-02-17 19:35:00	14110	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0		14103	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-797	2014-02-18 07:45:00	14120	openms_id_file_converter	0.1.0	14115		
-797	2014-02-18 07:45:00	14121	openms_id_mapper	0.1.0	14118	openms_id_file_converter	0.1.0
-797	2014-02-18 07:45:00	14121	openms_id_mapper	0.1.0	14119	silac_analyzer	0.1.0
-797	2014-02-18 07:45:00	14122	openms_protein_quantifier	0.1.0	14120	openms_id_file_converter	0.1.0
-797	2014-02-18 07:45:00	14122	openms_protein_quantifier	0.1.0	14121	openms_id_mapper	0.1.0
-804	2014-02-19 15:18:00	14140	rmcontamination	0.1	14139		
-804	2014-02-19 15:18:00	14143	eukaryotic_ncbi_submission	0.1.2	14141	scaffold2fasta	0.1
-804	2014-02-19 15:18:00	14143	eukaryotic_ncbi_submission	0.1.2	14141	scaffold2fasta	0.1
-804	2014-02-19 15:18:00	14142	eukaryotic_ncbi_submission	0.1.2	14141	scaffold2fasta	0.1
-804	2014-02-19 15:18:00	14142	eukaryotic_ncbi_submission	0.1.2	14141	scaffold2fasta	0.1
-804	2014-02-19 15:18:00	14146	antismash	2.0.2.1	14143	eukaryotic_ncbi_submission	0.1.2
-806	2014-02-19 15:23:00	14150	bismark_bowtie2	0.7.12	14148		
-806	2014-02-19 15:23:00	14151	bamCoverage_deepTools	1	14149	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2
-812	2014-03-10 12:55:00	14183	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3_raw/0.2.1	0.2.1	14181		
-812	2014-03-10 12:55:00	14186	proteomics_search_tandem_1	1.0.1	14182		
-812	2014-03-10 12:55:00	14186	proteomics_search_tandem_1	1.0.1	14184	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3_raw/0.2.1	0.2.1
-812	2014-03-10 12:55:00	14188	openms_id_file_converter	0.1.0	14187	toolshed.g2.bx.psu.edu/repos/iracooke/tpp_prophets/proteomics_search_peptide_prophet_1/1.0.1	1.0.1
-812	2014-03-10 12:55:00	14189	toolshed.g2.bx.psu.edu/repos/iracooke/tpp_prophets/proteomics_search_protein_prophet_1/1.0.1	1.0.1	14187	toolshed.g2.bx.psu.edu/repos/iracooke/tpp_prophets/proteomics_search_peptide_prophet_1/1.0.1	1.0.1
-813	2014-02-28 08:53:00	14194	Convert characters1		14193		
-813	2014-02-28 08:53:00	14195	join1		14194	Convert characters1	
-813	2014-02-28 08:53:00	14197	toolshed.g2.bx.psu.edu/repos/devteam/merge_cols/mergeCols1/1.0.1		14196	toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue/1.0.0	
-815	2014-02-28 08:57:00	14211	toolshed.g2.bx.psu.edu/repos/devteam/merge_cols/mergeCols1/1.0.1	1.0.1	14210	toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue/1.0.0	1.0.0
-816	2014-02-28 12:05:00	14217	toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0	1.0.0	14213	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-816	2014-02-28 12:05:00	14216	bamCoverage_deepTools	1	14213	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-820	2014-02-28 15:58:00	14246	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0	0.1.0	14244		
-820	2014-02-28 15:58:00	14246	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0	0.1.0	14245		
-820	2014-02-28 15:58:00	14250	join1	2.0.2	14246	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0	0.1.0
-820	2014-02-28 15:58:00	14249	Grouping1	2.0.0	14248	Add_a_column1	1.1.0
-820	2014-02-28 15:58:00	14250	join1	2.0.2	14249	Grouping1	2.0.0
-820	2014-02-28 15:58:00	14254	Grouping1	2.0.0	14251	Add_a_column1	1.1.0
-824	2014-03-02 20:08:00	14280	Add_a_column1	1.1.0	14279	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0	0.1.0
-824	2014-03-02 20:08:00	14281	Add_a_column1	1.1.0	14280	Add_a_column1	1.1.0
-828	2014-03-03 11:52:00	14324	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	14321	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7
-828	2014-03-03 11:52:00	14324	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	14322	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	1.0.0
-828	2014-03-03 11:52:00	14319	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	14323	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7
-828	2014-03-03 11:52:00	14319	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	14324	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-828	2014-03-03 11:52:00	14320	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2	14326		
-828	2014-03-03 11:52:00	14320	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2	14327		
-828	2014-03-03 11:52:00	14324	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	14328		
-828	2014-03-03 11:52:00	14324	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7	14329		
-829	2014-03-03 14:04:00	14352	cshl_word_list_grep		14330		
-829	2014-03-03 14:04:00	14355	cshl_word_list_grep		14330		
-829	2014-03-03 14:04:00	14335	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0		14331		
-829	2014-03-03 14:04:00	14336	Filter1		14334	Filter1	
-829	2014-03-03 14:04:00	14341	Filter1		14334	Filter1	
-829	2014-03-03 14:04:00	14343	Cut1		14336	Filter1	
-829	2014-03-03 14:04:00	14345	Cut1		14338	Filter1	
-829	2014-03-03 14:04:00	14347	Cut1		14340	Filter1	
-829	2014-03-03 14:04:00	14348	Cut1		14341	Filter1	
-829	2014-03-03 14:04:00	14352	cshl_word_list_grep		14345	Cut1	
-829	2014-03-03 14:04:00	14355	cshl_word_list_grep		14348	Cut1	
-829	2014-03-03 14:04:00	14359	join1		14349	Add_a_column1	
-829	2014-03-03 14:04:00	14356	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0		14350	cshl_word_list_grep	
-829	2014-03-03 14:04:00	14358	Add_a_column1		14357	Add_a_column1	
-829	2014-03-03 14:04:00	14359	join1		14358	Add_a_column1	
-829	2014-03-03 14:04:00	14360	Add_a_column1		14359	join1	
-829	2014-03-03 14:04:00	14361	Grouping1		14360	Add_a_column1	
-829	2014-03-03 14:04:00	14364	Paste1		14361	Grouping1	
-829	2014-03-03 14:04:00	14364	Paste1		14362	Grouping1	
-829	2014-03-03 14:04:00	14366	Cut1		14365	Paste1	
-834	2014-03-03 14:52:00	14429	Grouping1	2.0.0	14430	Add_a_column1	1.1.0
-834	2014-03-03 14:52:00	14434	Add_a_column1	1.1.0	14432	Add_a_column1	1.1.0
-834	2014-03-03 14:52:00	14435	Add_a_column1	1.1.0	14433	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0	0.1.0
-834	2014-03-03 14:52:00	14437	Add_a_column1	1.1.0	14435	Add_a_column1	1.1.0
-866	2014-03-09 18:14:00	14967	Cut1	1.0.2	14965	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastn_wrapper/0.0.20	0.0.20
-866	2014-03-09 18:14:00	14969	Add_a_column1	1.1.0	14967	Cut1	1.0.2
-866	2014-03-09 18:14:00	14970	Add_a_column1	1.1.0	14968	Cut1	1.0.2
-866	2014-03-09 18:14:00	14971	Add_a_column1	1.1.0	14969	Add_a_column1	1.1.0
-866	2014-03-09 18:14:00	14959	Add_a_column1	1.1.0	14971	Add_a_column1	1.1.0
-866	2014-03-09 18:14:00	14965	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastn_wrapper/0.0.20	0.0.20	14973		
-866	2014-03-09 18:14:00	14966	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastn_wrapper/0.0.20	0.0.20	14974		
-868	2014-03-09 20:22:00	14996	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	14993	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7
-868	2014-03-09 20:22:00	14996	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	14994	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-868	2014-03-09 20:22:00	14997	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	14995	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_reduce_reads/0.0.7	0.0.7
-868	2014-03-09 20:22:00	14992	toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/1.56.0	1.56.0	14998	toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0	1.56.0
-868	2014-03-09 20:22:00	14998	toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0	1.56.0	14999	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2
-868	2014-03-09 20:22:00	14997	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	15002		
-869	2014-03-10 12:53:00	15006	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3/0.2.1	0.2.1	15005		
-872	2014-03-10 13:17:00	15038	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	15035	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_reduce_reads/0.0.7	0.0.7
-872	2014-03-10 13:17:00	15032	toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/1.56.0	1.56.0	15042	toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0	1.56.0
-872	2014-03-10 13:17:00	15042	toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0	1.56.0	15043	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2
-872	2014-03-10 13:17:00	15038	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	15046		
-872	2014-03-10 13:17:00	15043	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2	15050		
-872	2014-03-10 13:17:00	15043	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	0.2	15051		
-879	2014-03-11 19:51:00	15121	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15128		
-879	2014-03-11 19:51:00	15121	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15129		
-879	2014-03-11 19:51:00	15127	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15133		
-879	2014-03-11 19:51:00	15127	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15134		
-887	2014-03-14 14:28:00	15220	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15212		
-887	2014-03-14 14:28:00	15221	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15213		
-887	2014-03-14 14:28:00	15223	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15214		
-887	2014-03-14 14:28:00	15225	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15214		
-887	2014-03-14 14:28:00	15224	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15215		
-887	2014-03-14 14:28:00	15225	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15215		
-887	2014-03-14 14:28:00	15227	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15217		
-887	2014-03-14 14:28:00	15236	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15232	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-887	2014-03-14 14:28:00	15236	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15233	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-887	2014-03-14 14:28:00	15237	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15234	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-887	2014-03-14 14:28:00	15237	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15235	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-892	2014-03-14 15:14:00	15263	toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: shuffleseq87/5.0.0	5.0.0	15262		
-892	2014-03-14 15:14:00	15265	toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue/1.0.0	1.0.0	15264	fasta2tab	1.1.0
-893	2014-03-14 20:04:00	15268	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/3.4	3.4	15269	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1	0.1
-893	2014-03-14 20:04:00	15272	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15276		
-893	2014-03-14 20:04:00	15272	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15277		
-893	2014-03-14 20:04:00	15274	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15280		
-893	2014-03-14 20:04:00	15274	toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1	0.1	15281		
-897	2014-03-16 20:33:00	15316	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15308		
-897	2014-03-16 20:33:00	15319	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15308		
-897	2014-03-16 20:33:00	15321	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15308		
-897	2014-03-16 20:33:00	15318	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15309		
-897	2014-03-16 20:33:00	15319	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15309		
-897	2014-03-16 20:33:00	15321	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15309		
-897	2014-03-16 20:33:00	15322	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15310		
-897	2014-03-16 20:33:00	15327	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15310		
-897	2014-03-16 20:33:00	15324	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15311		
-897	2014-03-16 20:33:00	15327	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15311		
-897	2014-03-16 20:33:00	15331	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15312		
-897	2014-03-16 20:33:00	15329	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15312		
-897	2014-03-16 20:33:00	15333	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15312		
-897	2014-03-16 20:33:00	15330	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15313		
-897	2014-03-16 20:33:00	15331	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15313		
-897	2014-03-16 20:33:00	15332	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15313		
-897	2014-03-16 20:33:00	15333	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15313		
-897	2014-03-16 20:33:00	15339	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15314		
-897	2014-03-16 20:33:00	15336	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15315		
-897	2014-03-16 20:33:00	15338	toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52		15315		
-897	2014-03-16 20:33:00	15339	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2		15315		
-897	2014-03-16 20:33:00	15342	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0		15325	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	
-897	2014-03-16 20:33:00	15345	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0		15333	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	
-897	2014-03-16 20:33:00	15347	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0		15339	toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2	
-897	2014-03-16 20:33:00	15348	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15340	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-897	2014-03-16 20:33:00	15348	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15342	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-897	2014-03-16 20:33:00	15350	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15344	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-897	2014-03-16 20:33:00	15351	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15345	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-897	2014-03-16 20:33:00	15350	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15346	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-897	2014-03-16 20:33:00	15351	toolshed.g2.bx.psu.edu/repos/ziru-zhou/macs2/modencode_peakcalling_macs2/2.0.10.2		15347	toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup/samtools_rmdup/1.0.0	
-902	2014-03-17 13:28:00	15385	Remove beginning1		15380		
-902	2014-03-17 13:28:00	15387	Filter1		15384	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	
-902	2014-03-17 13:28:00	15389	Grouping1		15387	Filter1	
-906	2014-03-17 16:25:00	15411	proteomics_search_tandem_1	1.0.1	15408		
-906	2014-03-17 16:25:00	15410	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3_raw/0.2.1	0.2.1	15409		
-906	2014-03-17 16:25:00	15411	proteomics_search_tandem_1	1.0.1	15410	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3_raw/0.2.1	0.2.1
-906	2014-03-17 16:25:00	15412	toolshed.g2.bx.psu.edu/repos/iracooke/tpp_prophets/proteomics_search_peptide_prophet_1/1.0.1	1.0.1	15411	proteomics_search_tandem_1	1.0.1
-908	2014-03-17 16:28:00	15431	proteomics_search_tandem_1	1.0.1	15427		
-908	2014-03-17 16:28:00	15430	silac_analyzer	0.1.0	15428	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3_raw/0.2.1	0.2.1
-908	2014-03-17 16:28:00	15431	proteomics_search_tandem_1	1.0.1	15429	toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert3_raw/0.2.1	0.2.1
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-908	2014-03-17 16:28:00	15437	openms_protein_quantifier	0.1.0	15435	openms_id_mapper	0.1.0
-908	2014-03-17 16:28:00	15437	openms_protein_quantifier	0.1.0	15436	openms_id_file_converter	0.1.0
-911	2014-03-18 12:19:00	15469	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	15467	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_reduce_reads/0.0.7	0.0.7
-911	2014-03-18 12:19:00	15468	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	0.0.7	15469	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7
-911	2014-03-18 12:19:00	15470	toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/3.4	3.4	15471	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_annotator/0.0.7	0.0.7
-911	2014-03-18 12:19:00	15469	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/0.0.7	0.0.7	15473		
-914	2014-03-18 21:07:00	15512	fasta2tab	1.1.0	15508		
-914	2014-03-18 21:07:00	15513	toolshed.g2.bx.psu.edu/repos/jjohnson/rsem/rsem_calculate_expression/1.1.17		15509		
-914	2014-03-18 21:07:00	15513	toolshed.g2.bx.psu.edu/repos/jjohnson/rsem/rsem_calculate_expression/1.1.17		15510		
-914	2014-03-18 21:07:00	15513	toolshed.g2.bx.psu.edu/repos/jjohnson/rsem/rsem_calculate_expression/1.1.17		15511	toolshed.g2.bx.psu.edu/repos/jjohnson/rsem/rsem_prepare_reference/1.1.17	
-914	2014-03-18 21:07:00	15514	Cut1	1.0.2	15512	fasta2tab	1.1.0
-914	2014-03-18 21:07:00	15516	Convert characters1	1.0.0	15514	Cut1	1.0.2
-914	2014-03-18 21:07:00	15518	Cut1	1.0.2	15516	Convert characters1	1.0.0
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-914	2014-03-18 21:07:00	15522	join1	2.0.2	15521	Paste1	1.0.0
-914	2014-03-18 21:07:00	15524	addValue	1.0.0	15523	addValue	1.0.0
-914	2014-03-18 21:07:00	15525	mergeCols1	1.0.1	15524	addValue	1.0.0
-914	2014-03-18 21:07:00	15527	tab2fasta	1.1.0	15526	Cut1	1.0.2
-914	2014-03-18 21:07:00	15528	toolshed.g2.bx.psu.edu/repos/devteam/fasta_formatter/cshl_fasta_formatter/1.0.0	1.0.0	15527	tab2fasta	1.1.0
-915	2014-03-18 21:10:00	15532	Show beginning1	1.0.0	15529		
-915	2014-03-18 21:10:00	15533	Show beginning1	1.0.0	15530		
-915	2014-03-18 21:10:00	15537	Extract genomic DNA 1	2.2.3	15531		
-915	2014-03-18 21:10:00	15537	Extract genomic DNA 1	2.2.3	15536	toolshed.g2.bx.psu.edu/repos/jjohnson/filter_bed_on_splice_junctions/filter_bed_on_splice_junctions/0.0.1	
-915	2014-03-18 21:10:00	15538	toolshed.g2.bx.psu.edu/repos/jjohnson/translate_bed_sequences/translate_bed_sequences/0.0.1		15537	Extract genomic DNA 1	2.2.3
-924	2014-03-19 23:17:00	15625	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_annotator/0.0.7	0.0.7	15622	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/0.0.7	0.0.7
-924	2014-03-19 23:17:00	15627	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7	15626	toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/1.56.0	1.56.0
-924	2014-03-19 23:17:00	15632	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	15629	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7
-924	2014-03-19 23:17:00	15629	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	15630	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-924	2014-03-19 23:17:00	15632	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7	15630	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7	0.0.7
-924	2014-03-19 23:17:00	15631	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_reduce_reads/0.0.7	0.0.7	15632	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_print_reads/0.0.7	0.0.7
-924	2014-03-19 23:17:00	15625	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_annotator/0.0.7	0.0.7	15633		
-924	2014-03-19 23:17:00	15629	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	15633		
-924	2014-03-19 23:17:00	15627	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7	15634		
-924	2014-03-19 23:17:00	15629	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	15634		
-924	2014-03-19 23:17:00	15627	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7	0.0.7	15635		
-924	2014-03-19 23:17:00	15629	toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/0.0.7	0.0.7	15635		
-924	2014-03-19 23:17:00	15628	toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0	1.56.0	15636		
-927	2014-03-22 09:47:00	15676	proteomics_search_tandem_1	1.0.1	15672		
-3	2013-02-07 16:48:00	8	addValue	1.0.0	6	Cut1	1.0.1
-3	2013-02-07 16:48:00	6	Cut1	1.0.1	7	Remove beginning1	1.0.0
-3	2013-02-07 16:48:00	9	Cut1	1.0.1	7	Remove beginning1	1.0.0
-3	2013-02-07 16:48:00	11	Paste1	1.0.0	8	addValue	1.0.0
-3	2013-02-07 16:48:00	11	Paste1	1.0.0	9	Cut1	1.0.1
-3	2013-02-07 16:48:00	10	addValue	1.0.0	11	Paste1	1.0.0
-3	2013-02-07 16:48:00	5	Grep1	1.0.1	12		
-4	2013-02-07 16:48:00	22	barchart_gnuplot	1.0.0	13	cat1	1.0.0
-4	2013-02-07 16:48:00	17	sort1	1.0.1	15	bedtools_intersectBed	
-4	2013-02-07 16:48:00	19	cshl_awk_tool		17	sort1	1.0.1
-4	2013-02-07 16:48:00	15	bedtools_intersectBed		23		
-4	2013-02-07 16:48:00	15	bedtools_intersectBed		24		
-5	2013-02-07 16:49:00	67	barchart_gnuplot	1.0.0	26	cat1	1.0.0
-5	2013-02-07 16:49:00	65	Add_a_column1	1.1.0	35	Paste1	1.0.0
-5	2013-02-07 16:49:00	45	Summary_Statistics1	1.1.0	39	Filter1	1.1.0
-5	2013-02-07 16:49:00	46	Summary_Statistics1	1.1.0	39	Filter1	1.1.0
-5	2013-02-07 16:49:00	41	cshl_grep_tool	1.0.0	40	gops_coverage_1	1.0.0
-5	2013-02-07 16:49:00	42	Filter1	1.1.0	40	gops_coverage_1	1.0.0
-5	2013-02-07 16:49:00	43	Filter1	1.1.0	40	gops_coverage_1	1.0.0
-5	2013-02-07 16:49:00	44	Filter1	1.1.0	40	gops_coverage_1	1.0.0
-5	2013-02-07 16:49:00	56	Summary_Statistics1	1.1.0	43	Filter1	1.1.0
-5	2013-02-07 16:49:00	53	Summary_Statistics1	1.1.0	44	Filter1	1.1.0
-5	2013-02-07 16:49:00	58	Cut1	1.0.1	46	Summary_Statistics1	1.1.0
-5	2013-02-07 16:49:00	32	Cut1	1.0.1	49	Summary_Statistics1	1.1.0
-5	2013-02-07 16:49:00	25	addValue	1.0.0	61	Add_a_column1	1.1.0
-5	2013-02-07 16:49:00	48	addValue	1.0.0	65	Add_a_column1	1.1.0
-5	2013-02-07 16:49:00	61	Add_a_column1	1.1.0	66	Paste1	1.0.0
-9	2013-02-07 16:59:00	85	addValue	1.0.0	83	Cut1	1.0.1
-9	2013-02-07 16:59:00	83	Cut1	1.0.1	84	Remove beginning1	1.0.0
-9	2013-02-07 16:59:00	86	Cut1	1.0.1	84	Remove beginning1	1.0.0
-9	2013-02-07 16:59:00	87	addValue	1.0.0	88	Paste1	1.0.0
-11	2013-02-07 17:03:00	136	cat1	1.0.0	135	addValue	1.0.0
-11	2013-02-07 17:03:00	147	Paste1	1.0.0	141	Cut1	1.0.1
-11	2013-02-07 17:03:00	147	Paste1	1.0.0	142	Cut1	1.0.1
-11	2013-02-07 17:03:00	136	cat1	1.0.0	148	addValue	1.0.0
-11	2013-02-07 17:03:00	136	cat1	1.0.0	149	addValue	1.0.0
-11	2013-02-07 17:03:00	150	Filter1	1.1.0	151	gops_coverage_1	1.0.0
-11	2013-02-07 17:03:00	152	cshl_grep_tool	1.0.0	151	gops_coverage_1	1.0.0
-11	2013-02-07 17:03:00	153	Filter1	1.1.0	151	gops_coverage_1	1.0.0
-11	2013-02-07 17:03:00	154	Filter1	1.1.0	151	gops_coverage_1	1.0.0
-11	2013-02-07 17:03:00	166	Summary_Statistics1	1.1.0	154	Filter1	1.1.0
-11	2013-02-07 17:03:00	167	Summary_Statistics1	1.1.0	154	Filter1	1.1.0
-11	2013-02-07 17:03:00	164	Summary_Statistics1	1.1.0	155	Filter1	1.1.0
-11	2013-02-07 17:03:00	165	Summary_Statistics1	1.1.0	155	Filter1	1.1.0
-11	2013-02-07 17:03:00	169	Cut1	1.0.1	157	Summary_Statistics1	1.1.0
-11	2013-02-07 17:03:00	136	cat1	1.0.0	158	addValue	1.0.0
-11	2013-02-07 17:03:00	136	cat1	1.0.0	159	addValue	1.0.0
-11	2013-02-07 17:03:00	142	Cut1	1.0.1	160	Summary_Statistics1	1.1.0
-11	2013-02-07 17:03:00	143	Cut1	1.0.1	163	Summary_Statistics1	1.1.0
-11	2013-02-07 17:03:00	138	Cut1	1.0.1	164	Summary_Statistics1	1.1.0
-11	2013-02-07 17:03:00	140	Cut1	1.0.1	166	Summary_Statistics1	1.1.0
-11	2013-02-07 17:03:00	139	Cut1	1.0.1	167	Summary_Statistics1	1.1.0
-11	2013-02-07 17:03:00	135	addValue	1.0.0	172	Add_a_column1	1.1.0
-11	2013-02-07 17:03:00	159	addValue	1.0.0	176	Add_a_column1	1.1.0
-11	2013-02-07 17:03:00	172	Add_a_column1	1.1.0	177	Paste1	1.0.0
-11	2013-02-07 17:03:00	151	gops_coverage_1	1.0.0	178		
-11	2013-02-07 17:03:00	151	gops_coverage_1	1.0.0	179		
-12	2013-02-07 17:04:00	189	barchart_gnuplot	1.0.0	180	cat1	1.0.0
-12	2013-02-07 17:04:00	183	wc_gnu	1.0.0	181	bedtools_intersectBed	
-12	2013-02-07 17:04:00	184	sort1	1.0.1	182	bedtools_intersectBed	
-19	2013-02-14 15:51:00	205	gops_subtract_1	1.0.0	199		
-19	2013-02-14 15:51:00	210	cshl_awk_tool		200	gops_intersect_1	1.0.0
-19	2013-02-14 15:51:00	215	Count1	1.0.0	200	gops_intersect_1	1.0.0
-19	2013-02-14 15:51:00	205	gops_subtract_1	1.0.0	201	cshl_find_and_replace	1.0.0
-19	2013-02-14 15:51:00	202	get_flanks1	1.0.0	203		
-19	2013-02-14 15:51:00	204	cshl_grep_tool	1.0.0	203		
-19	2013-02-14 15:51:00	206	cshl_awk_tool		205	gops_subtract_1	1.0.0
-19	2013-02-14 15:51:00	214	Show beginning1	1.0.0	207	Extract genomic DNA 1	2.2.2
-19	2013-02-14 15:51:00	211	Show beginning1	1.0.0	209	Extract genomic DNA 1	2.2.2
-19	2013-02-14 15:51:00	212	meme_meme	1.0.0	211	Show beginning1	1.0.0
-29	2013-02-14 17:12:00	246	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	245		
-29	2013-02-14 17:12:00	246	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	247		
-29	2013-02-14 17:12:00	252	gops_intersect_1	1.0.0	251		
-29	2013-02-14 17:12:00	267	Count1	1.0.0	252	gops_intersect_1	1.0.0
-29	2013-02-14 17:12:00	252	gops_intersect_1	1.0.0	253	cshl_find_and_replace	1.0.0
-29	2013-02-14 17:12:00	253	cshl_find_and_replace	1.0.0	254	get_flanks1	1.0.0
-29	2013-02-14 17:12:00	258	cshl_awk_tool		257	gops_subtract_1	1.0.0
-29	2013-02-14 17:12:00	259	Extract genomic DNA 1	2.2.2	258	cshl_awk_tool	
-29	2013-02-14 17:12:00	259	Extract genomic DNA 1	2.2.2	260		
-29	2013-02-14 17:12:00	261	Extract genomic DNA 1	2.2.2	260		
-29	2013-02-14 17:12:00	261	Extract genomic DNA 1	2.2.2	262	cshl_awk_tool	
-29	2013-02-14 17:12:00	268	barchart_gnuplot	1.0.0	267	Count1	1.0.0
-31	2013-02-18 11:33:00	277	Cut1	1.0.1	276	mergeCols1	1.0.1
-33	2013-02-16 18:11:00	286	Count1	1.0.0	284	gops_intersect_1	1.0.0
-37	2013-02-18 11:33:00	295	cshl_sed_tool	1.0.0	294		
-38	2013-02-18 15:28:00	297	Count1		296	gops_intersect_1	
-62	2013-02-18 16:20:00	397	barchart_gnuplot	1.0.0	396	Count1	1.0.0
-64	2013-02-18 16:19:00	403	barchart_gnuplot	1.0.0	402	Count1	1.0.0
-66	2013-02-18 16:19:00	408	Count1	1.0.0	407		
-66	2013-02-18 16:19:00	409	barchart_gnuplot	1.0.0	408	Count1	1.0.0
-72	2013-02-18 16:20:00	427	barchart_gnuplot	1.0.0	426	Count1	1.0.0
-74	2013-02-18 16:20:00	432	Count1	1.0.0	431		
-74	2013-02-18 16:20:00	433	barchart_gnuplot	1.0.0	432	Count1	1.0.0
-75	2013-02-18 16:20:00	437	barchart_gnuplot		436	Count1	
-76	2013-02-18 16:20:00	439	Count1	1.0.0	438		
-80	2013-02-18 16:22:00	463	Count1	1.0.0	462		
-80	2013-02-18 16:22:00	464	barchart_gnuplot	1.0.0	463	Count1	1.0.0
-81	2013-02-18 16:22:00	467	mergeCols1	1.0.1	466	addValue	1.0.0
-81	2013-02-18 16:22:00	469	cshl_find_and_replace	1.0.0	468	Cut1	1.0.1
-81	2013-02-18 16:22:00	470	cshl_find_and_replace	1.0.0	469	cshl_find_and_replace	1.0.0
-81	2013-02-18 16:22:00	473	Count1	1.0.0	472	gops_intersect_1	1.0.0
-82	2013-02-18 16:22:00	476	CONVERTER_interval_to_bedstrict_0	1.0.0	475		
-82	2013-02-18 16:22:00	479	Cut1	1.0.1	478	mergeCols1	1.0.1
-82	2013-02-18 16:22:00	482	get_flanks1	1.0.0	481		
-82	2013-02-18 16:22:00	487	Count1	1.0.0	483	gops_intersect_1	1.0.0
-82	2013-02-18 16:22:00	486	CONVERTER_interval_to_bedstrict_0	1.0.0	485	CONVERTER_interval_to_bed_0	1.0.0
-83	2013-02-18 19:10:00	490	gops_intersect_1	1.0.0	489		
-83	2013-02-18 19:10:00	490	gops_intersect_1	1.0.0	491		
-83	2013-02-18 19:10:00	493	barchart_gnuplot	1.0.0	492	Count1	1.0.0
-84	2013-02-19 12:02:00	496	Count1		495	gops_intersect_1	
-84	2013-02-19 12:02:00	497	barchart_gnuplot		496	Count1	
-86	2013-02-19 12:08:00	507	Count1	1.0.0	505	gops_intersect_1	1.0.0
-95	2013-02-20 10:03:00	674	Count1	1.0.0	672	gops_intersect_1	1.0.0
-95	2013-02-20 10:03:00	675	barchart_gnuplot	1.0.0	674	Count1	1.0.0
-97	2013-02-20 10:11:00	703	cshl_awk_tool	1.0.0	701	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1
-97	2013-02-20 10:11:00	704	gops_subtract_1	1.0.0	703	cshl_awk_tool	1.0.0
-97	2013-02-20 10:11:00	722	Count1	1.0.0	704	gops_subtract_1	1.0.0
-97	2013-02-20 10:11:00	704	gops_subtract_1	1.0.0	705	cshl_awk_tool	1.0.0
-97	2013-02-20 10:11:00	705	cshl_awk_tool	1.0.0	706	get_flanks1	1.0.0
-97	2013-02-20 10:11:00	709	Extract genomic DNA 1	2.2.2	708	gops_intersect_1	1.0.0
-97	2013-02-20 10:11:00	720	Count1	1.0.0	708	gops_intersect_1	1.0.0
-97	2013-02-20 10:11:00	716	fasta2tab	1.1.0	709	Extract genomic DNA 1	2.2.2
-97	2013-02-20 10:11:00	709	Extract genomic DNA 1	2.2.2	710		
-97	2013-02-20 10:11:00	712	fasta2tab	1.1.0	711	Extract genomic DNA 1	2.2.2
-97	2013-02-20 10:11:00	713	Show beginning1	1.0.0	712	fasta2tab	1.1.0
-97	2013-02-20 10:11:00	719	meme_meme	1.0.0	718	tab2fasta	1.1.0
-97	2013-02-20 10:11:00	723	barchart_gnuplot	1.0.0	722	Count1	1.0.0
-98	2013-02-20 10:44:00	725	addValue	1.0.0	724		
-98	2013-02-20 10:44:00	727	Cut1	1.0.1	726	mergeCols1	1.0.1
-101	2013-02-20 14:16:00	738	mergeCols1	1.0.1	737	addValue	1.0.0
-101	2013-02-20 14:16:00	739	Cut1	1.0.1	738	mergeCols1	1.0.1
-103	2013-02-20 15:32:00	754	gops_intersect_1		753		
-103	2013-02-20 15:32:00	757	gops_subtract_1		753		
-103	2013-02-20 15:32:00	758	Count1		754	gops_intersect_1	
-103	2013-02-20 15:32:00	754	gops_intersect_1		755	get_flanks1	
-103	2013-02-20 15:32:00	757	gops_subtract_1		755	get_flanks1	
-103	2013-02-20 15:32:00	759	barchart_gnuplot		758	Count1	
-106	2013-02-20 15:46:00	813	cshl_awk_tool	1.0.0	810	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1
-106	2013-02-20 15:46:00	814	gops_subtract_1	1.0.0	813	cshl_awk_tool	1.0.0
-106	2013-02-20 15:46:00	818	gops_intersect_1	1.0.0	813	cshl_awk_tool	1.0.0
-106	2013-02-20 15:46:00	814	gops_subtract_1	1.0.0	815	cshl_awk_tool	1.0.0
-106	2013-02-20 15:46:00	818	gops_intersect_1	1.0.0	815	cshl_awk_tool	1.0.0
-106	2013-02-20 15:46:00	815	cshl_awk_tool	1.0.0	816	get_flanks1	1.0.0
-106	2013-02-20 15:46:00	816	get_flanks1	1.0.0	817		
-106	2013-02-20 15:46:00	819	Extract genomic DNA 1	2.2.2	818	gops_intersect_1	1.0.0
-106	2013-02-20 15:46:00	821	Count1	1.0.0	818	gops_intersect_1	1.0.0
-106	2013-02-20 15:46:00	819	Extract genomic DNA 1	2.2.2	820		
-106	2013-02-20 15:46:00	831	Show beginning1	1.0.0	824	fasta2tab	1.1.0
-106	2013-02-20 15:46:00	829	tab2fasta	1.1.0	828	Show beginning1	1.0.0
-106	2013-02-20 15:46:00	832	tab2fasta	1.1.0	831	Show beginning1	1.0.0
-109	2013-02-20 15:49:00	881	cshl_awk_tool		879	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	
-109	2013-02-20 15:49:00	884	gops_intersect_1		883		
-109	2013-02-20 15:49:00	888	Extract genomic DNA 1		884	gops_intersect_1	
-109	2013-02-20 15:49:00	884	gops_intersect_1		885	get_flanks1	
-109	2013-02-20 15:49:00	885	get_flanks1		886		
-109	2013-02-20 15:49:00	890	fasta2tab		888	Extract genomic DNA 1	
-109	2013-02-20 15:49:00	888	Extract genomic DNA 1		889		
-110	2013-02-20 15:54:00	895	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	894		
-110	2013-02-20 15:54:00	895	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	896		
-110	2013-02-20 15:54:00	904	gops_intersect_1	1.0.0	900		
-110	2013-02-20 15:54:00	913	Count1	1.0.0	901	gops_subtract_1	1.0.0
-110	2013-02-20 15:54:00	904	gops_intersect_1	1.0.0	902	get_flanks1	1.0.0
-110	2013-02-20 15:54:00	908	Show beginning1	1.0.0	907	fasta2tab	1.1.0
-111	2013-02-20 15:51:00	917	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1		916		
-111	2013-02-20 15:51:00	919	cshl_awk_tool		917	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	
-111	2013-02-20 15:51:00	917	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1		918		
-111	2013-02-20 15:51:00	923	gops_intersect_1		922		
-111	2013-02-20 15:51:00	923	gops_intersect_1		924	get_flanks1	
-111	2013-02-20 15:51:00	927	Extract genomic DNA 1		924	get_flanks1	
-111	2013-02-20 15:51:00	924	get_flanks1		925		
-111	2013-02-20 15:51:00	927	Extract genomic DNA 1		928		
-111	2013-02-20 15:51:00	931	tab2fasta		930	Show beginning1	
-111	2013-02-20 15:51:00	932	meme_meme		931	tab2fasta	
-111	2013-02-20 15:51:00	934	barchart_gnuplot		933	Count1	
-112	2013-02-20 15:51:00	937	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1		936		
-112	2013-02-20 15:51:00	939	cshl_awk_tool		937	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	
-112	2013-02-20 15:51:00	940	cshl_awk_tool		937	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	
-112	2013-02-20 15:51:00	937	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1		938		
-112	2013-02-20 15:51:00	943	gops_intersect_1		942		
-112	2013-02-20 15:51:00	943	gops_intersect_1		944	get_flanks1	
-112	2013-02-20 15:51:00	949	gops_intersect_1		944	get_flanks1	
-112	2013-02-20 15:51:00	947	gops_intersect_1		946	get_flanks1	
-112	2013-02-20 15:51:00	950	gops_subtract_1		947	gops_intersect_1	
-112	2013-02-20 15:51:00	947	gops_intersect_1		948		
-112	2013-02-20 15:51:00	949	gops_intersect_1		948		
-112	2013-02-20 15:51:00	950	gops_subtract_1		948		
-112	2013-02-20 15:51:00	951	Count1		950	gops_subtract_1	
-112	2013-02-20 15:51:00	959	meme_meme		958	tab2fasta	
-113	2013-02-20 15:52:00	961	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1		960		
-113	2013-02-20 15:52:00	963	cshl_awk_tool		961	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	
-113	2013-02-20 15:52:00	961	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1		962		
-113	2013-02-20 15:52:00	975	Count1		968	gops_intersect_1	
-113	2013-02-20 15:52:00	977	Extract genomic DNA 1		968	gops_intersect_1	
-113	2013-02-20 15:52:00	972	Count1		971	gops_subtract_1	
-113	2013-02-20 15:52:00	973	barchart_gnuplot		972	Count1	
-113	2013-02-20 15:52:00	974	barchart_gnuplot		972	Count1	
-113	2013-02-20 15:52:00	976	barchart_gnuplot		975	Count1	
-113	2013-02-20 15:52:00	977	Extract genomic DNA 1		978		
-113	2013-02-20 15:52:00	980	Show beginning1		979	fasta2tab	
-113	2013-02-20 15:52:00	981	tab2fasta		980	Show beginning1	
-113	2013-02-20 15:52:00	982	meme_meme		981	tab2fasta	
-114	2013-02-20 15:58:00	994	gops_subtract_1		990		
-114	2013-02-20 15:58:00	996	Count1		991	gops_intersect_1	
-114	2013-02-20 15:58:00	994	gops_subtract_1		992	get_flanks1	
-114	2013-02-20 15:58:00	992	get_flanks1		993		
-114	2013-02-20 15:58:00	1003	meme_meme		1002	tab2fasta	
-114	2013-02-20 15:58:00	1004	meme_meme		1002	tab2fasta	
-115	2013-02-20 16:00:00	1008	cshl_awk_tool	1.0.0	1006	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1
-115	2013-02-20 16:00:00	1013	gops_intersect_1	1.0.0	1008	cshl_awk_tool	1.0.0
-115	2013-02-20 16:00:00	1016	Extract genomic DNA 1	2.2.2	1009	gops_subtract_1	1.0.0
-115	2013-02-20 16:00:00	1013	gops_intersect_1	1.0.0	1010	cshl_awk_tool	1.0.0
-115	2013-02-20 16:00:00	1010	cshl_awk_tool	1.0.0	1011	get_flanks1	1.0.0
-115	2013-02-20 16:00:00	1014	Extract genomic DNA 1	2.2.2	1013	gops_intersect_1	1.0.0
-115	2013-02-20 16:00:00	1014	Extract genomic DNA 1	2.2.2	1015		
-115	2013-02-20 16:00:00	1016	Extract genomic DNA 1	2.2.2	1015		
-115	2013-02-20 16:00:00	1018	Show beginning1	1.0.0	1017	fasta2tab	1.1.0
-115	2013-02-20 16:00:00	1020	meme_meme	1.0.0	1019	tab2fasta	1.1.0
-115	2013-02-20 16:00:00	1022	Show beginning1	1.0.0	1021	fasta2tab	1.1.0
-115	2013-02-20 16:00:00	1023	tab2fasta	1.1.0	1022	Show beginning1	1.0.0
-115	2013-02-20 16:00:00	1026	barchart_gnuplot	1.0.0	1025	Count1	1.0.0
-115	2013-02-20 16:00:00	1028	barchart_gnuplot	1.0.0	1027	Count1	1.0.0
-116	2013-02-20 16:00:00	1030	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1029		
-116	2013-02-20 16:00:00	1032	cshl_awk_tool	1.0.0	1030	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1
-116	2013-02-20 16:00:00	1030	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1031		
-116	2013-02-20 16:00:00	1038	Extract genomic DNA 1	2.2.2	1037	gops_intersect_1	1.0.0
-116	2013-02-20 16:00:00	1049	Count1	1.0.0	1037	gops_intersect_1	1.0.0
-116	2013-02-20 16:00:00	1045	fasta2tab	1.1.0	1038	Extract genomic DNA 1	2.2.2
-116	2013-02-20 16:00:00	1038	Extract genomic DNA 1	2.2.2	1039		
-116	2013-02-20 16:00:00	1042	Show beginning1	1.0.0	1041	fasta2tab	1.1.0
-116	2013-02-20 16:00:00	1043	tab2fasta	1.1.0	1042	Show beginning1	1.0.0
-116	2013-02-20 16:00:00	1046	Show beginning1	1.0.0	1045	fasta2tab	1.1.0
-116	2013-02-20 16:00:00	1047	tab2fasta	1.1.0	1046	Show beginning1	1.0.0
-116	2013-02-20 16:00:00	1048	meme_meme	1.0.0	1047	tab2fasta	1.1.0
-116	2013-02-20 16:00:00	1052	barchart_gnuplot	1.0.0	1051	Count1	1.0.0
-117	2013-02-20 16:00:00	1057	gops_subtract_1	1.0.0	1056	cshl_awk_tool	1.0.0
-117	2013-02-20 16:00:00	1061	gops_intersect_1	1.0.0	1056	cshl_awk_tool	1.0.0
-117	2013-02-20 16:00:00	1075	Count1	1.0.0	1057	gops_subtract_1	1.0.0
-117	2013-02-20 16:00:00	1057	gops_subtract_1	1.0.0	1058	cshl_awk_tool	1.0.0
-117	2013-02-20 16:00:00	1061	gops_intersect_1	1.0.0	1058	cshl_awk_tool	1.0.0
-117	2013-02-20 16:00:00	1058	cshl_awk_tool	1.0.0	1059	get_flanks1	1.0.0
-117	2013-02-20 16:00:00	1059	get_flanks1	1.0.0	1060		
-117	2013-02-20 16:00:00	1062	Extract genomic DNA 1	2.2.2	1061	gops_intersect_1	1.0.0
-117	2013-02-20 16:00:00	1069	fasta2tab	1.1.0	1062	Extract genomic DNA 1	2.2.2
-117	2013-02-20 16:00:00	1062	Extract genomic DNA 1	2.2.2	1063		
-117	2013-02-20 16:00:00	1065	fasta2tab	1.1.0	1064	Extract genomic DNA 1	2.2.2
-117	2013-02-20 16:00:00	1066	Show beginning1	1.0.0	1065	fasta2tab	1.1.0
-117	2013-02-20 16:00:00	1068	meme_meme	1.0.0	1067	tab2fasta	1.1.0
-117	2013-02-20 16:00:00	1071	tab2fasta	1.1.0	1070	Show beginning1	1.0.0
-117	2013-02-20 16:00:00	1072	meme_meme	1.0.0	1071	tab2fasta	1.1.0
-117	2013-02-20 16:00:00	1074	barchart_gnuplot	1.0.0	1073	Count1	1.0.0
-118	2013-02-20 16:00:00	1099	Count1	1.0.0	1081	gops_subtract_1	1.0.0
-118	2013-02-20 16:00:00	1097	Count1	1.0.0	1085	gops_intersect_1	1.0.0
-118	2013-02-20 16:00:00	1093	fasta2tab	1.1.0	1086	Extract genomic DNA 1	2.2.2
-118	2013-02-20 16:00:00	1089	fasta2tab	1.1.0	1088	Extract genomic DNA 1	2.2.2
-118	2013-02-20 16:00:00	1091	tab2fasta	1.1.0	1090	Show beginning1	1.0.0
-118	2013-02-20 16:00:00	1092	meme_meme	1.0.0	1091	tab2fasta	1.1.0
-119	2013-02-20 16:01:00	1102	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1101		
-119	2013-02-20 16:01:00	1102	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1103		
-119	2013-02-20 16:01:00	1105	gops_subtract_1	1.0.0	1104	cshl_awk_tool	1.0.0
-119	2013-02-20 16:01:00	1112	Extract genomic DNA 1	2.2.2	1105	gops_subtract_1	1.0.0
-119	2013-02-20 16:01:00	1105	gops_subtract_1	1.0.0	1106	cshl_awk_tool	1.0.0
-119	2013-02-20 16:01:00	1117	fasta2tab	1.1.0	1110	Extract genomic DNA 1	2.2.2
-119	2013-02-20 16:01:00	1112	Extract genomic DNA 1	2.2.2	1111		
-119	2013-02-20 16:01:00	1115	tab2fasta	1.1.0	1114	Show beginning1	1.0.0
-119	2013-02-20 16:01:00	1116	meme_meme	1.0.0	1115	tab2fasta	1.1.0
-119	2013-02-20 16:01:00	1119	tab2fasta	1.1.0	1118	Show beginning1	1.0.0
-119	2013-02-20 16:01:00	1124	barchart_gnuplot	1.0.0	1123	Count1	1.0.0
-120	2013-02-20 16:02:00	1126	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1125		
-120	2013-02-20 16:02:00	1126	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1127		
-120	2013-02-20 16:02:00	1129	gops_subtract_1	1.0.0	1128	cshl_awk_tool	1.0.0
-120	2013-02-20 16:02:00	1136	Extract genomic DNA 1	2.2.2	1129	gops_subtract_1	1.0.0
-120	2013-02-20 16:02:00	1147	Count1	1.0.0	1129	gops_subtract_1	1.0.0
-120	2013-02-20 16:02:00	1129	gops_subtract_1	1.0.0	1130	cshl_awk_tool	1.0.0
-120	2013-02-20 16:02:00	1130	cshl_awk_tool	1.0.0	1131	get_flanks1	1.0.0
-120	2013-02-20 16:02:00	1141	fasta2tab	1.1.0	1134	Extract genomic DNA 1	2.2.2
-120	2013-02-20 16:02:00	1136	Extract genomic DNA 1	2.2.2	1135		
-120	2013-02-20 16:02:00	1139	tab2fasta	1.1.0	1138	Show beginning1	1.0.0
-120	2013-02-20 16:02:00	1142	Show beginning1	1.0.0	1141	fasta2tab	1.1.0
-120	2013-02-20 16:02:00	1143	tab2fasta	1.1.0	1142	Show beginning1	1.0.0
-120	2013-02-20 16:02:00	1144	meme_meme	1.0.0	1143	tab2fasta	1.1.0
-120	2013-02-20 16:02:00	1146	barchart_gnuplot	1.0.0	1145	Count1	1.0.0
-120	2013-02-20 16:02:00	1148	barchart_gnuplot	1.0.0	1147	Count1	1.0.0
-121	2013-02-20 16:06:00	1150	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1149		
-121	2013-02-20 16:06:00	1150	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1151		
-121	2013-02-20 16:06:00	1157	gops_intersect_1	1.0.0	1152	cshl_awk_tool	1.0.0
-121	2013-02-20 16:06:00	1157	gops_intersect_1	1.0.0	1154	cshl_awk_tool	1.0.0
-121	2013-02-20 16:06:00	1154	cshl_awk_tool	1.0.0	1155	get_flanks1	1.0.0
-121	2013-02-20 16:06:00	1155	get_flanks1	1.0.0	1156		
-121	2013-02-20 16:06:00	1166	Show beginning1	1.0.0	1165	fasta2tab	1.1.0
-121	2013-02-20 16:06:00	1168	meme_meme	1.0.0	1167	tab2fasta	1.1.0
-124	2013-02-21 16:53:00	1273	barchart_gnuplot	1.0.0	1264	cat1	1.0.0
-124	2013-02-21 16:53:00	1298	Paste1	1.0.0	1265	Cut1	1.0.1
-124	2013-02-21 16:53:00	1298	Paste1	1.0.0	1266	Cut1	1.0.1
-124	2013-02-21 16:53:00	1303	Add_a_column1	1.1.0	1275	Paste1	1.0.0
-124	2013-02-21 16:53:00	1283	Filter1	1.1.0	1279	gops_coverage_1	1.0.0
-124	2013-02-21 16:53:00	1290	Summary_Statistics1	1.1.0	1280	cshl_grep_tool	1.0.0
-124	2013-02-21 16:53:00	1292	Summary_Statistics1	1.1.0	1283	Filter1	1.1.0
-124	2013-02-21 16:53:00	1270	Cut1	1.0.1	1288	Summary_Statistics1	1.1.0
-124	2013-02-21 16:53:00	1266	Cut1	1.0.1	1292	Summary_Statistics1	1.1.0
-124	2013-02-21 16:53:00	1265	Cut1	1.0.1	1293	Summary_Statistics1	1.1.0
-124	2013-02-21 16:53:00	1267	Cut1	1.0.1	1295	Summary_Statistics1	1.1.0
-124	2013-02-21 16:53:00	1301	Add_a_column1	1.1.0	1298	Paste1	1.0.0
-124	2013-02-21 16:53:00	1263	addValue	1.0.0	1300	Add_a_column1	1.1.0
-124	2013-02-21 16:53:00	1286	addValue	1.0.0	1303	Add_a_column1	1.1.0
-124	2013-02-21 16:53:00	1287	addValue	1.0.0	1304	Add_a_column1	1.1.0
-124	2013-02-21 16:53:00	1300	Add_a_column1	1.1.0	1305	Paste1	1.0.0
-125	2013-02-21 16:55:00	1313	addValue	1.0.0	1311	wc_gnu	1.0.0
-125	2013-02-21 16:55:00	1314	cshl_awk_tool	1.0.0	1312	sort1	1.0.1
-125	2013-02-21 16:55:00	1308	cat1	1.0.0	1313	addValue	1.0.0
-125	2013-02-21 16:55:00	1308	cat1	1.0.0	1315	Count1	1.0.0
-125	2013-02-21 16:55:00	1309	bedtools_intersectBed		1318		
-125	2013-02-21 16:55:00	1310	bedtools_intersectBed		1318		
-125	2013-02-21 16:55:00	1309	bedtools_intersectBed		1319		
-125	2013-02-21 16:55:00	1310	bedtools_intersectBed		1319		
-127	2013-02-22 13:15:00	1336	wc_gnu	1.0.0	1334	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-127	2013-02-22 13:15:00	1338	addValue	1.0.0	1336	wc_gnu	1.0.0
-127	2013-02-22 13:15:00	1340	Count1	1.0.0	1341	cshl_uniq_tool	1.0.0
-127	2013-02-22 13:15:00	1334	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1342		
-127	2013-02-22 13:15:00	1335	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1342		
-127	2013-02-22 13:15:00	1334	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1343		
-127	2013-02-22 13:15:00	1335	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1343		
-129	2013-02-22 13:29:00	1360	wc_gnu	1.0.0	1358	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-129	2013-02-22 13:29:00	1362	addValue	1.0.0	1360	wc_gnu	1.0.0
-129	2013-02-22 13:29:00	1357	cat1	1.0.0	1362	addValue	1.0.0
-129	2013-02-22 13:29:00	1357	cat1	1.0.0	1364	Count1	1.0.0
-129	2013-02-22 13:29:00	1358	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1366		
-129	2013-02-22 13:29:00	1359	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1366		
-129	2013-02-22 13:29:00	1358	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1367		
-129	2013-02-22 13:29:00	1359	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1367		
-130	2013-02-22 13:55:00	1368	barchart_gnuplot	1.0.0	1369	cat1	1.0.0
-130	2013-02-22 13:55:00	1372	wc_gnu	1.0.0	1370	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-130	2013-02-22 13:55:00	1375	cshl_awk_tool	1.0.0	1373	sort1	1.0.1
-130	2013-02-22 13:55:00	1376	Count1	1.0.0	1377	cshl_uniq_tool	1.0.0
-130	2013-02-22 13:55:00	1371	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1378		
-130	2013-02-22 13:55:00	1371	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	1379		
-131	2013-02-22 14:30:00	1381	cshl_find_and_replace		1380		
-131	2013-02-22 14:30:00	1382	gops_intersect_1		1380		
-131	2013-02-22 14:30:00	1387	Cut1		1382	gops_intersect_1	
-131	2013-02-22 14:30:00	1382	gops_intersect_1		1383	CONVERTER_interval_to_bed_0	
-131	2013-02-22 14:30:00	1383	CONVERTER_interval_to_bed_0		1384	Cut1	
-131	2013-02-22 14:30:00	1388	cshl_uniq_tool		1387	Cut1	
-133	2013-02-22 15:23:00	1396	bams2ratio		1389		
-133	2013-02-22 15:23:00	1396	bams2ratio		1393		
-133	2013-02-22 15:23:00	1399	get_flanks1		1400		
-133	2013-02-22 15:23:00	1405	fasta2tab		1403	Extract genomic DNA 1	
-133	2013-02-22 15:23:00	1406	Show beginning1		1405	fasta2tab	
-133	2013-02-22 15:23:00	1407	tab2fasta		1406	Show beginning1	
-139	2013-02-22 18:45:00	1471	tab2fasta	1.1.0	1472	Show beginning1	1.0.0
-141	2013-02-22 18:57:00	1489	cshl_uniq_tool	1.0.0	1490	gops_intersect_1	1.0.0
-142	2013-02-25 10:04:00	1494	cat1	1.0.0	1493	addValue	1.0.0
-142	2013-02-25 10:04:00	1503	barchart_gnuplot	1.0.0	1494	cat1	1.0.0
-142	2013-02-25 10:04:00	1528	Paste1	1.0.0	1495	Cut1	1.0.1
-142	2013-02-25 10:04:00	1528	Paste1	1.0.0	1496	Cut1	1.0.1
-142	2013-02-25 10:04:00	1535	Paste1	1.0.0	1497	Cut1	1.0.1
-142	2013-02-25 10:04:00	1535	Paste1	1.0.0	1498	Cut1	1.0.1
-142	2013-02-25 10:04:00	1505	Paste1	1.0.0	1499	Cut1	1.0.1
-142	2013-02-25 10:04:00	1505	Paste1	1.0.0	1500	Cut1	1.0.1
-142	2013-02-25 10:04:00	1533	Add_a_column1	1.1.0	1505	Paste1	1.0.0
-142	2013-02-25 10:04:00	1494	cat1	1.0.0	1506	addValue	1.0.0
-142	2013-02-25 10:04:00	1494	cat1	1.0.0	1507	addValue	1.0.0
-142	2013-02-25 10:04:00	1514	Summary_Statistics1	1.1.0	1508	Filter1	1.1.0
-142	2013-02-25 10:04:00	1513	Filter1	1.1.0	1509	gops_coverage_1	1.0.0
-142	2013-02-25 10:04:00	1521	Summary_Statistics1	1.1.0	1510	cshl_grep_tool	1.0.0
-142	2013-02-25 10:04:00	1518	Summary_Statistics1	1.1.0	1511	Filter1	1.1.0
-142	2013-02-25 10:04:00	1525	Summary_Statistics1	1.1.0	1512	Filter1	1.1.0
-142	2013-02-25 10:04:00	1522	Summary_Statistics1	1.1.0	1513	Filter1	1.1.0
-142	2013-02-25 10:04:00	1523	Summary_Statistics1	1.1.0	1513	Filter1	1.1.0
-142	2013-02-25 10:04:00	1527	Cut1	1.0.1	1515	Summary_Statistics1	1.1.0
-142	2013-02-25 10:04:00	1494	cat1	1.0.0	1516	addValue	1.0.0
-142	2013-02-25 10:04:00	1494	cat1	1.0.0	1517	addValue	1.0.0
-142	2013-02-25 10:04:00	1496	Cut1	1.0.1	1522	Summary_Statistics1	1.1.0
-142	2013-02-25 10:04:00	1495	Cut1	1.0.1	1523	Summary_Statistics1	1.1.0
-142	2013-02-25 10:04:00	1532	Add_a_column1	1.1.0	1529	Paste1	1.0.0
-142	2013-02-25 10:04:00	1507	addValue	1.0.0	1531	Add_a_column1	1.1.0
-142	2013-02-25 10:04:00	1516	addValue	1.0.0	1533	Add_a_column1	1.1.0
-142	2013-02-25 10:04:00	1517	addValue	1.0.0	1534	Add_a_column1	1.1.0
-142	2013-02-25 10:04:00	1530	Add_a_column1	1.1.0	1535	Paste1	1.0.0
-148	2013-03-17 21:43:00	1605	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1607	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1609	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1611	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1617	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1619	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1625	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1627	Filter1	1.1.0	1604		
-148	2013-03-17 21:43:00	1606	Paste1	1.0.0	1605	Filter1	1.1.0
-148	2013-03-17 21:43:00	1608	Paste1	1.0.0	1606	Paste1	1.0.0
-148	2013-03-17 21:43:00	1606	Paste1	1.0.0	1607	Filter1	1.1.0
-148	2013-03-17 21:43:00	1610	Paste1	1.0.0	1608	Paste1	1.0.0
-148	2013-03-17 21:43:00	1608	Paste1	1.0.0	1609	Filter1	1.1.0
-148	2013-03-17 21:43:00	1612	Paste1	1.0.0	1610	Paste1	1.0.0
-148	2013-03-17 21:43:00	1610	Paste1	1.0.0	1611	Filter1	1.1.0
-148	2013-03-17 21:43:00	1614	Paste1	1.0.0	1612	Paste1	1.0.0
-148	2013-03-17 21:43:00	1612	Paste1	1.0.0	1613	Filter1	1.1.0
-148	2013-03-17 21:43:00	1616	Paste1	1.0.0	1614	Paste1	1.0.0
-148	2013-03-17 21:43:00	1614	Paste1	1.0.0	1615	Filter1	1.1.0
-148	2013-03-17 21:43:00	1616	Paste1	1.0.0	1617	Filter1	1.1.0
-148	2013-03-17 21:43:00	1620	Paste1	1.0.0	1618	Paste1	1.0.0
-148	2013-03-17 21:43:00	1622	Paste1	1.0.0	1620	Paste1	1.0.0
-148	2013-03-17 21:43:00	1620	Paste1	1.0.0	1621	Filter1	1.1.0
-148	2013-03-17 21:43:00	1624	Paste1	1.0.0	1622	Paste1	1.0.0
-148	2013-03-17 21:43:00	1622	Paste1	1.0.0	1623	Filter1	1.1.0
-148	2013-03-17 21:43:00	1624	Paste1	1.0.0	1625	Filter1	1.1.0
-148	2013-03-17 21:43:00	1628	Cut1	1.0.1	1626	Paste1	1.0.0
-148	2013-03-17 21:43:00	1631	Add_a_column1	1.1.0	1630	Add_a_column1	1.1.0
-148	2013-03-17 21:43:00	1633	Add_a_column1	1.1.0	1632	Add_a_column1	1.1.0
-148	2013-03-17 21:43:00	1635	Add_a_column1	1.1.0	1634	Add_a_column1	1.1.0
-148	2013-03-17 21:43:00	1641	Add_a_column1	1.1.0	1640	Add_a_column1	1.1.0
-148	2013-03-17 21:43:00	1643	XY_Plot_1	1.0.1	1642	Cut1	1.0.1
-148	2013-03-17 21:43:00	1643	XY_Plot_1	1.0.1	1642	Cut1	1.0.1
-148	2013-03-17 21:43:00	1643	XY_Plot_1	1.0.1	1642	Cut1	1.0.1
-148	2013-03-17 21:43:00	1643	XY_Plot_1	1.0.1	1642	Cut1	1.0.1
-148	2013-03-17 21:43:00	1643	XY_Plot_1	1.0.1	1642	Cut1	1.0.1
-150	2013-03-25 09:27:00	1657	Grouping1	2.0.0	1655	gops_join_1	1.0.0
-150	2013-03-25 09:27:00	1658	sort1	1.0.1	1657	Grouping1	2.0.0
-153	2013-04-09 12:18:00	1774	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_mergebedgraph/0.1.0	0.1.0	1773	Cut1	1.0.1
-153	2013-04-09 12:18:00	1774	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_mergebedgraph/0.1.0	0.1.0	1775	Cut1	1.0.1
-153	2013-04-09 12:18:00	1775	Cut1	1.0.1	1776	Add_a_column1	1.1.0
-153	2013-04-09 12:18:00	1776	Add_a_column1	1.1.0	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1778		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1779		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1780		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1781		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1782		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1783		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1784		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1785		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1786		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1787		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1788		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1789		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1790		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1791		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1792		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1793		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1794		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1795		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1796		
-153	2013-04-09 12:18:00	1777	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_multiintersectbed/0.1.0	0.1.0	1797		
-153	2013-04-09 12:18:00	1800	gops_intersect_1	1.0.0	1799	Filter1	1.1.0
-153	2013-04-09 12:18:00	1803	Cut1	1.0.1	1800	gops_intersect_1	1.0.0
-153	2013-04-09 12:18:00	1800	gops_intersect_1	1.0.0	1801	Cut1	1.0.1
-153	2013-04-09 12:18:00	1804	sort1	1.0.1	1803	Cut1	1.0.1
-153	2013-04-09 12:18:00	1805	cshl_uniq_tool	1.0.0	1804	sort1	1.0.1
-155	2013-04-10 19:28:00	1824	sam_to_bam	1.1.2	1818	bismark_bowtie	0.7.7.3
-158	2013-04-18 07:56:00	1889	Filter1	1.1.0	1888	Cut1	1.0.1
-158	2013-04-18 07:56:00	1893	cshl_find_and_replace	1.0.0	1892	cshl_find_and_replace	1.0.0
-158	2013-04-18 07:56:00	1894	cshl_find_and_replace	1.0.0	1893	cshl_find_and_replace	1.0.0
-158	2013-04-18 07:56:00	1896	cshl_find_and_replace	1.0.0	1895	cshl_find_and_replace	1.0.0
-158	2013-04-18 07:56:00	1897	cshl_find_and_replace	1.0.0	1896	cshl_find_and_replace	1.0.0
-158	2013-04-18 07:56:00	1899	Add_a_column1	1.1.0	1898	cshl_find_and_replace	1.0.0
-158	2013-04-18 07:56:00	1900	Add_a_column1	1.1.0	1899	Add_a_column1	1.1.0
-158	2013-04-18 07:56:00	1902	addValue	1.0.0	1901	Cut1	1.0.1
-159	2013-04-28 20:36:00	1906	sort1		1905	mergeCols1	
-159	2013-04-28 20:36:00	1907	Cut1		1906	sort1	
-159	2013-04-28 20:36:00	1908	methtools_destrand		1907	Cut1	
-160	2013-04-28 20:36:00	1911	Cut1		1910	sort1	
-162	2013-05-17 14:43:00	1920	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1919		
-162	2013-05-17 14:43:00	1922	cshl_awk_tool	1.0.0	1920	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1
-162	2013-05-17 14:43:00	1920	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	1921		
-162	2013-05-17 14:43:00	1923	gops_subtract_1	1.0.0	1922	cshl_awk_tool	1.0.0
-162	2013-05-17 14:43:00	1923	gops_subtract_1	1.0.0	1924	cshl_awk_tool	1.0.0
-162	2013-05-17 14:43:00	1925	get_flanks1	1.0.0	1926		
-162	2013-05-17 14:43:00	1928	Extract genomic DNA 1	2.2.2	1927	gops_intersect_1	1.0.0
-162	2013-05-17 14:43:00	1935	fasta2tab	1.1.0	1928	Extract genomic DNA 1	2.2.2
-162	2013-05-17 14:43:00	1928	Extract genomic DNA 1	2.2.2	1929		
-162	2013-05-17 14:43:00	1931	fasta2tab	1.1.0	1930	Extract genomic DNA 1	2.2.2
-162	2013-05-17 14:43:00	1932	Show beginning1	1.0.0	1931	fasta2tab	1.1.0
-162	2013-05-17 14:43:00	1934	meme_meme	1.0.0	1933	tab2fasta	1.1.0
-162	2013-05-17 14:43:00	1942	barchart_gnuplot	1.0.0	1941	Count1	1.0.0
-164	2013-05-20 16:05:00	1967	bam2wig	1.3	1966	samtools_rmdup	1.0.0
-164	2013-05-20 16:05:00	1971	samtools_rmdup	1.0.0	1970	bowtie2	0.1
-164	2013-05-20 16:05:00	1975	samtools_rmdup	1.0.0	1974	bowtie2	0.1
-164	2013-05-20 16:05:00	1979	samtools_rmdup	1.0.0	1978	bowtie2	0.1
-164	2013-05-20 16:05:00	1982	bowtie2	0.1	1981		
-165	2013-05-23 17:21:00	1989	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		1988		
-165	2013-05-23 17:21:00	1989	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		1990		
-171	2013-05-31 10:17:00	2175	Filter1		2174	Cut1	
-171	2013-05-31 10:17:00	2177	cshl_find_and_replace		2176	Add_a_column1	
-171	2013-05-31 10:17:00	2178	cshl_find_and_replace		2177	cshl_find_and_replace	
-171	2013-05-31 10:17:00	2179	cshl_find_and_replace		2178	cshl_find_and_replace	
-171	2013-05-31 10:17:00	2180	cshl_find_and_replace		2179	cshl_find_and_replace	
-171	2013-05-31 10:17:00	2181	cshl_find_and_replace		2180	cshl_find_and_replace	
-171	2013-05-31 10:17:00	2186	Add_a_column1		2185	Add_a_column1	
-171	2013-05-31 10:17:00	2188	addValue		2187	Cut1	
-171	2013-05-31 10:17:00	2191	sam_merge2		2190	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2192	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2193	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2194	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2195	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2196	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2197	sam_to_bam	
-171	2013-05-31 10:17:00	2191	sam_merge2		2198	sam_to_bam	
-171	2013-05-31 10:17:00	2200	methtools_calling		2199	samtools_rmdup	
-171	2013-05-31 10:17:00	2204	Filter1		2200	methtools_calling	
-171	2013-05-31 10:17:00	2205	gops_subtract_1		2200	methtools_calling	
-171	2013-05-31 10:17:00	2203	Add_a_column1		2202	Add_a_column1	
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2312	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2313	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2314	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2315	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2341	tophat2	0.5	2318	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2341	tophat2	0.5	2318	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2340	tophat2	0.5	2319	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2340	tophat2	0.5	2319	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2339	tophat2	0.5	2320	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2339	tophat2	0.5	2320	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2325	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2326	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2327	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2328	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2335	tophat2	0.5	2329	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2335	tophat2	0.5	2329	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2334	tophat2	0.5	2330	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2334	tophat2	0.5	2330	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2332	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2315	cufflinks	0.0.5	2334	tophat2	0.5
-174	2013-06-09 19:14:00	2313	cufflinks	0.0.5	2335	tophat2	0.5
-174	2013-06-09 19:14:00	2325	cufflinks	0.0.5	2339	tophat2	0.5
-174	2013-06-09 19:14:00	2327	cufflinks	0.0.5	2341	tophat2	0.5
-174	2013-06-09 19:14:00	2314	cufflinks	0.0.5	2342	tophat2	0.5
-174	2013-06-09 19:14:00	2312	cufflinks	0.0.5	2343	tophat2	0.5
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2344	cufflinks	0.0.5
-174	2013-06-09 19:14:00	2312	cufflinks	0.0.5	2345		
-174	2013-06-09 19:14:00	2313	cufflinks	0.0.5	2345		
-174	2013-06-09 19:14:00	2314	cufflinks	0.0.5	2345		
-174	2013-06-09 19:14:00	2315	cufflinks	0.0.5	2345		
-174	2013-06-09 19:14:00	2325	cufflinks	0.0.5	2345		
-174	2013-06-09 19:14:00	2327	cufflinks	0.0.5	2345		
-174	2013-06-09 19:14:00	2333	cuffmerge	0.0.5	2345		
-174	2013-06-09 19:14:00	2334	tophat2	0.5	2345		
-174	2013-06-09 19:14:00	2335	tophat2	0.5	2345		
-174	2013-06-09 19:14:00	2339	tophat2	0.5	2345		
-174	2013-06-09 19:14:00	2340	tophat2	0.5	2345		
-174	2013-06-09 19:14:00	2341	tophat2	0.5	2345		
-174	2013-06-09 19:14:00	2318	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2346		
-174	2013-06-09 19:14:00	2318	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2347		
-174	2013-06-09 19:14:00	2319	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2348		
-174	2013-06-09 19:14:00	2319	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2349		
-174	2013-06-09 19:14:00	2322	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2354		
-174	2013-06-09 19:14:00	2322	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2355		
-174	2013-06-09 19:14:00	2329	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2360		
-174	2013-06-09 19:14:00	2329	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2361		
-174	2013-06-09 19:14:00	2330	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2362		
-174	2013-06-09 19:14:00	2330	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2363		
-174	2013-06-09 19:14:00	2337	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2364		
-174	2013-06-09 19:14:00	2337	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	2365		
-176	2013-06-12 15:39:00	2384	sam_merge2		2375	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2376	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2377	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2378	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2379	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2380	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2381	sam_to_bam	
-176	2013-06-12 15:39:00	2384	sam_merge2		2382	sam_to_bam	
-176	2013-06-12 15:39:00	2386	samtools_rmdup		2384	sam_merge2	
-176	2013-06-12 15:39:00	2389	cshl_find_and_replace		2387	Add_a_column1	
-176	2013-06-12 15:39:00	2391	Filter1		2388	methtools_calling	
-176	2013-06-12 15:39:00	2393	cshl_find_and_replace		2389	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2394	Add_a_column1		2390	Filter1	
-176	2013-06-12 15:39:00	2395	cshl_sort_header		2392	gops_subtract_1	
-176	2013-06-12 15:39:00	2398	methtools_destrand		2395	cshl_sort_header	
-176	2013-06-12 15:39:00	2401	cshl_find_and_replace		2400	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2402	cshl_find_and_replace		2401	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2404	Add_a_column1		2403	cshl_find_and_replace	
-176	2013-06-12 15:39:00	2405	Add_a_column1		2404	Add_a_column1	
-176	2013-06-12 15:39:00	2407	addValue		2406	Cut1	
-179	2013-06-12 20:23:00	2442	methtools_filter	0.1.1	2443	Cut1	1.0.2
-179	2013-06-12 20:23:00	2446	Filter1	1.1.0	2445	cshl_sort_header	0.1
-179	2013-06-12 20:23:00	2447	Filter1	1.1.0	2445	cshl_sort_header	0.1
-179	2013-06-12 20:23:00	2453	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2447	Filter1	1.1.0
-179	2013-06-12 20:23:00	2451	Cut1	1.0.2	2448	Add_a_column1	1.1.0
-179	2013-06-12 20:23:00	2448	Add_a_column1	1.1.0	2449	Add_a_column1	1.1.0
-179	2013-06-12 20:23:00	2452	addValue	1.0.0	2450	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-179	2013-06-12 20:23:00	2453	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2451	Cut1	1.0.2
-179	2013-06-12 20:23:00	2443	Cut1	1.0.2	2452	addValue	1.0.0
-179	2013-06-12 20:23:00	2442	methtools_filter	0.1.1	2453	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-182	2013-06-15 20:36:00	2507	Add_a_column1	1.1.0	2506	Filter1	1.1.0
-182	2013-06-15 20:36:00	2508	cshl_find_and_replace	1.0.0	2507	Add_a_column1	1.1.0
-182	2013-06-15 20:36:00	2510	cshl_find_and_replace	1.0.0	2509	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2511	cshl_find_and_replace	1.0.0	2510	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2513	cshl_find_and_replace	1.0.0	2512	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2514	cshl_find_and_replace	1.0.0	2513	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2516	Add_a_column1	1.1.0	2515	cshl_find_and_replace	1.0.0
-182	2013-06-15 20:36:00	2517	Add_a_column1	1.1.0	2516	Add_a_column1	1.1.0
-182	2013-06-15 20:36:00	2518	Cut1	1.0.2	2517	Add_a_column1	1.1.0
-205	2013-06-21 07:07:00	2665	Add_a_column1	1.1.0	2662	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2662	cshl_find_and_replace	1.0.0	2663	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2669	mergeCols1	1.0.1	2666	addValue	1.0.0
-205	2013-06-21 07:07:00	2666	addValue	1.0.0	2667	Cut1	1.0.2
-205	2013-06-21 07:07:00	2673	Filter1	1.1.0	2671	Cut1	1.0.2
-205	2013-06-21 07:07:00	2675	cshl_find_and_replace	1.0.0	2672	Add_a_column1	1.1.0
-205	2013-06-21 07:07:00	2672	Add_a_column1	1.1.0	2673	Filter1	1.1.0
-205	2013-06-21 07:07:00	2674	cshl_find_and_replace	1.0.0	2675	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2679	cshl_find_and_replace	1.0.0	2676	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2676	cshl_find_and_replace	1.0.0	2677	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2663	cshl_find_and_replace	1.0.0	2678	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2678	cshl_find_and_replace	1.0.0	2679	cshl_find_and_replace	1.0.0
-205	2013-06-21 07:07:00	2671	Cut1	1.0.2	2681		
-218	2013-06-21 19:40:00	2792	methtools_destrand	0.1.1	2790	cshl_sort_header	0.1
-218	2013-06-21 19:40:00	2793	methtools_destrand	0.1.1	2791	cshl_sort_header	0.1
-218	2013-06-21 19:40:00	2788	Filter1	1.1.0	2796	methtools_dmr	0.1.1
-218	2013-06-21 19:40:00	2789	Filter1	1.1.0	2796	methtools_dmr	0.1.1
-218	2013-06-21 19:40:00	2790	cshl_sort_header	0.1	2798		
-218	2013-06-21 19:40:00	2791	cshl_sort_header	0.1	2799		
-224	2013-06-22 06:21:00	2851	cshl_sort_header	0.1	2848		
-224	2013-06-22 06:21:00	2853	methtools_plot	0.1.1	2850		
-224	2013-06-22 06:21:00	2853	methtools_plot	0.1.1	2851	cshl_sort_header	0.1
-224	2013-06-22 06:21:00	2853	methtools_plot	0.1.1	2852	cshl_sort_header	0.1
-227	2013-06-22 14:12:00	2858	methtools_destrand	0.1.1	2857	cshl_sort_header	0.1
-227	2013-06-22 14:12:00	2857	cshl_sort_header	0.1	2859		
-241	2013-06-23 20:34:00	2995	cat1	1.0.0	2993	Paste1	1.0.0
-241	2013-06-23 20:34:00	2995	cat1	1.0.0	2994	Paste1	1.0.0
-241	2013-06-23 20:34:00	3000	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	2999	Filter1	1.1.0
-241	2013-06-23 20:34:00	2994	Paste1	1.0.0	3000	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-241	2013-06-23 20:34:00	2994	Paste1	1.0.0	3001	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-241	2013-06-23 20:34:00	3000	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3001	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-241	2013-06-23 20:34:00	2993	Paste1	1.0.0	3002	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-241	2013-06-23 20:34:00	2993	Paste1	1.0.0	3003	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-241	2013-06-23 20:34:00	2996	Filter1	1.1.0	3004		
-242	2013-06-24 11:29:00	3035	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3006		
-242	2013-06-24 11:29:00	3040	bowtie2		3010		
-242	2013-06-24 11:29:00	3041	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3010		
-242	2013-06-24 11:29:00	3043	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3011		
-242	2013-06-24 11:29:00	3046	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3013		
-242	2013-06-24 11:29:00	3047	bowtie2		3014		
-242	2013-06-24 11:29:00	3048	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3014		
-242	2013-06-24 11:29:00	3049	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3015		
-242	2013-06-24 11:29:00	3050	bowtie2		3016		
-242	2013-06-24 11:29:00	3051	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3016		
-242	2013-06-24 11:29:00	3052	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3017		
-242	2013-06-24 11:29:00	3055	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3019		
-242	2013-06-24 11:29:00	3056	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3027		
-242	2013-06-24 11:29:00	3059	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3030		
-242	2013-06-24 11:29:00	3061	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3032		
-242	2013-06-24 11:29:00	3062	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3033		
-242	2013-06-24 11:29:00	3063	samtools_rmdup		3034	bowtie2	
-242	2013-06-24 11:29:00	3064	bowtie2		3035	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3065	bowtie2		3037	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3066	bowtie2		3038	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3068	bowtie2		3041	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3071	bowtie2		3045	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3073	bowtie2		3048	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3075	bowtie2		3051	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3076	bowtie2		3052	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3078	bowtie2		3054	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3079	bowtie2		3055	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3080	bowtie2		3056	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3083	bowtie2		3059	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3084	bowtie2		3060	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3086	bowtie2		3062	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-242	2013-06-24 11:29:00	3087	samtools_rmdup		3064	bowtie2	
-242	2013-06-24 11:29:00	3088	samtools_rmdup		3065	bowtie2	
-242	2013-06-24 11:29:00	3089	samtools_rmdup		3066	bowtie2	
-242	2013-06-24 11:29:00	3090	samtools_rmdup		3067	bowtie2	
-242	2013-06-24 11:29:00	3092	samtools_rmdup		3069	bowtie2	
-242	2013-06-24 11:29:00	3093	samtools_rmdup		3070	bowtie2	
-242	2013-06-24 11:29:00	3096	samtools_rmdup		3073	bowtie2	
-242	2013-06-24 11:29:00	3098	samtools_rmdup		3075	bowtie2	
-242	2013-06-24 11:29:00	3099	samtools_rmdup		3076	bowtie2	
-242	2013-06-24 11:29:00	3103	samtools_rmdup		3081	bowtie2	
-242	2013-06-24 11:29:00	3104	samtools_rmdup		3082	bowtie2	
-242	2013-06-24 11:29:00	3105	samtools_rmdup		3083	bowtie2	
-242	2013-06-24 11:29:00	3107	samtools_rmdup		3085	bowtie2	
-242	2013-06-24 11:29:00	3113	sam_merge2		3096	samtools_rmdup	
-242	2013-06-24 11:29:00	3113	sam_merge2		3097	samtools_rmdup	
-242	2013-06-24 11:29:00	3115	sam_merge2		3100	samtools_rmdup	
-242	2013-06-24 11:29:00	3115	sam_merge2		3101	samtools_rmdup	
-242	2013-06-24 11:29:00	3116	sam_merge2		3102	samtools_rmdup	
-242	2013-06-24 11:29:00	3116	sam_merge2		3103	samtools_rmdup	
-242	2013-06-24 11:29:00	3117	bam2wig		3104	samtools_rmdup	
-242	2013-06-24 11:29:00	3118	sam_merge2		3105	samtools_rmdup	
-242	2013-06-24 11:29:00	3118	sam_merge2		3106	samtools_rmdup	
-242	2013-06-24 11:29:00	3119	sam_merge2		3107	samtools_rmdup	
-242	2013-06-24 11:29:00	3119	sam_merge2		3108	samtools_rmdup	
-242	2013-06-24 11:29:00	3120	bam2wig		3109	sam_merge2	
-242	2013-06-24 11:29:00	3121	bam2wig		3110	sam_merge2	
-242	2013-06-24 11:29:00	3123	bam2wig		3112	sam_merge2	
-242	2013-06-24 11:29:00	3127	bam2wig		3116	sam_merge2	
-242	2013-06-24 11:29:00	3128	bam2wig		3118	sam_merge2	
-243	2013-06-27 14:03:00	3133	samtools_rmdup		3132	bowtie2	
-252	2013-06-27 09:40:00	3190	Cut1	1.0.2	3191	Add_a_column1	1.1.0
-253	2013-06-27 14:24:00	3195	get_flanks1		3194		
-264	2013-07-31 09:27:00	3279	sam_merge2	1.1.2	3276	samtools_rmdup	1.0.0
-264	2013-07-31 09:27:00	3279	sam_merge2	1.1.2	3277	samtools_rmdup	1.0.0
-264	2013-07-31 09:27:00	3272	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3280		
-278	2013-06-30 21:55:00	3369	samtools_rmdup	1.0.0	3370	bismark_bowtie	0.7.12
-281	2013-07-01 13:45:00	3380	Filter1		3379	Convert characters1	
-281	2013-07-01 13:45:00	3381	Add_a_column1		3380	Filter1	
-281	2013-07-01 13:45:00	3382	Add_a_column1		3381	Add_a_column1	
-292	2013-07-03 17:45:00	3464	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3443		
-292	2013-07-03 17:45:00	3464	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3444		
-292	2013-07-03 17:45:00	3465	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3445		
-292	2013-07-03 17:45:00	3465	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3446		
-292	2013-07-03 17:45:00	3466	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3447		
-292	2013-07-03 17:45:00	3466	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3448		
-292	2013-07-03 17:45:00	3467	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3449		
-292	2013-07-03 17:45:00	3467	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3450		
-292	2013-07-03 17:45:00	3468	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3451		
-292	2013-07-03 17:45:00	3468	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3452		
-292	2013-07-03 17:45:00	3469	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3453		
-292	2013-07-03 17:45:00	3469	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3455		
-292	2013-07-03 17:45:00	3471	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3457		
-292	2013-07-03 17:45:00	3471	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3458		
-292	2013-07-03 17:45:00	3472	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3459		
-292	2013-07-03 17:45:00	3472	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1		3460		
-292	2013-07-03 17:45:00	3479	tophat2		3463		
-292	2013-07-03 17:45:00	3476	tophat2		3463		
-292	2013-07-03 17:45:00	3482	tophat2		3463		
-292	2013-07-03 17:45:00	3477	tophat2		3463		
-292	2013-07-03 17:45:00	3491	cufflinks		3463		
-292	2013-07-03 17:45:00	3492	cufflinks		3463		
-292	2013-07-03 17:45:00	3493	cufflinks		3463		
-292	2013-07-03 17:45:00	3485	cufflinks		3463		
-292	2013-07-03 17:45:00	3486	cufflinks		3463		
-292	2013-07-03 17:45:00	3494	cufflinks		3463		
-292	2013-07-03 17:45:00	3487	cufflinks		3463		
-292	2013-07-03 17:45:00	3496	cuffmerge		3463		
-292	2013-07-03 17:45:00	3476	tophat2		3466	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3476	tophat2		3466	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3477	tophat2		3467	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3477	tophat2		3467	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3479	tophat2		3469	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3479	tophat2		3469	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3482	tophat2		3472	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3482	tophat2		3472	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	
-292	2013-07-03 17:45:00	3485	cufflinks		3475	tophat2	
-292	2013-07-03 17:45:00	3486	cufflinks		3476	tophat2	
-292	2013-07-03 17:45:00	3487	cufflinks		3477	tophat2	
-292	2013-07-03 17:45:00	3489	bam2wig		3478	tophat2	
-292	2013-07-03 17:45:00	3490	bam2wig		3478	tophat2	
-292	2013-07-03 17:45:00	3491	cufflinks		3479	tophat2	
-292	2013-07-03 17:45:00	3492	cufflinks		3480	tophat2	
-292	2013-07-03 17:45:00	3493	cufflinks		3481	tophat2	
-292	2013-07-03 17:45:00	3494	cufflinks		3482	tophat2	
-292	2013-07-03 17:45:00	3496	cuffmerge		3484	cufflinks	
-292	2013-07-03 17:45:00	3496	cuffmerge		3485	cufflinks	
-292	2013-07-03 17:45:00	3496	cuffmerge		3486	cufflinks	
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-292	2013-07-03 17:45:00	3496	cuffmerge		3493	cufflinks	
-292	2013-07-03 17:45:00	3496	cuffmerge		3494	cufflinks	
-292	2013-07-03 17:45:00	3496	cuffmerge		3495	cufflinks	
-295	2013-07-03 17:52:00	3524	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3522		
-295	2013-07-03 17:52:00	3524	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3523		
-295	2013-07-03 17:52:00	3525	tophat2	0.5	3524	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-295	2013-07-03 17:52:00	3525	tophat2	0.5	3524	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-296	2013-07-03 17:55:00	3528	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	3527		
-296	2013-07-03 17:55:00	3530	cufflinks	0.0.5	3529	tophat2	0.5
-300	2013-07-03 19:48:00	3547	mergeCols1	1.0.1	3546	addValue	1.0.0
-300	2013-07-03 19:48:00	3548	cshl_awk_replace_in_column	1.0.0	3547	mergeCols1	1.0.1
-300	2013-07-03 19:48:00	3549	cshl_awk_replace_in_column	1.0.0	3548	cshl_awk_replace_in_column	1.0.0
-300	2013-07-03 19:48:00	3550	Add_a_column1	1.1.0	3549	cshl_awk_replace_in_column	1.0.0
-300	2013-07-03 19:48:00	3551	Cut1	1.0.2	3550	Add_a_column1	1.1.0
-314	2013-07-05 09:46:00	3641	Cut1	1.0.2	3639	Add_a_column1	1.1.0
-314	2013-07-05 09:46:00	3640	wig_to_bigWig	1.1.0	3641	Cut1	1.0.2
-327	2013-07-10 07:51:00	3753	Summary_Statistics1	1.1.0	3755	Filter1	1.1.0
-328	2013-07-10 08:24:00	3760	Filter1	1.1.0	3758	Filter1	1.1.0
-328	2013-07-10 08:24:00	3761	Filter1	1.1.0	3759	Filter1	1.1.0
-328	2013-07-10 08:24:00	3762	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3760	Filter1	1.1.0
-328	2013-07-10 08:24:00	3759	Filter1	1.1.0	3764		
-328	2013-07-10 08:24:00	3762	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	3765		
-334	2013-07-10 09:39:00	3801	Cut1	1.0.2	3799	Add_a_column1	1.1.0
-334	2013-07-10 09:39:00	3806	Filter1	1.1.0	3803	cat1	1.0.0
-334	2013-07-10 09:39:00	3798	Filter1	1.1.0	3807		
-355	2013-07-15 13:11:00	4004	Cut1	1.0.2	4002	addValue	1.0.0
-355	2013-07-15 13:11:00	4003	heatmapper	1.3	4004	Cut1	1.0.2
-355	2013-07-15 13:11:00	4005	heatmapper	1.3	4004	Cut1	1.0.2
-355	2013-07-15 13:11:00	4005	heatmapper	1.3	4004	Cut1	1.0.2
-355	2013-07-15 13:11:00	4006	heatmapper	1.3	4004	Cut1	1.0.2
-355	2013-07-15 13:11:00	4002	addValue	1.0.0	4008		
-355	2013-07-15 13:11:00	4003	heatmapper	1.3	4009		
-355	2013-07-15 13:11:00	4005	heatmapper	1.3	4010		
-355	2013-07-15 13:11:00	4006	heatmapper	1.3	4011		
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-358	2013-07-17 13:29:00	4027	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4033		
-358	2013-07-17 13:29:00	4029	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4033		
-358	2013-07-17 13:29:00	4027	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4034		
-358	2013-07-17 13:29:00	4028	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4034		
-358	2013-07-17 13:29:00	4031	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4034		
-358	2013-07-17 13:29:00	4029	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4035		
-358	2013-07-17 13:29:00	4031	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4035		
-359	2013-07-18 15:24:00	4039	bam2wig	1.3	4037	samtools_rmdup	1.0.0
-359	2013-07-18 15:24:00	4037	samtools_rmdup	1.0.0	4038	bowtie2	0.1
-359	2013-07-18 15:24:00	4036	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	4040		
-371	2013-07-24 20:44:00	4179	wig_to_bigWig	1.1.0	4186	Filter1	1.1.0
-371	2013-07-24 20:44:00	4174	wig_to_bigWig	1.1.0	4187	Filter1	1.1.0
-371	2013-07-24 20:44:00	4180	wig_to_bigWig	1.1.0	4189	Filter1	1.1.0
-371	2013-07-24 20:44:00	4181	wig_to_bigWig	1.1.0	4193	Filter1	1.1.0
-371	2013-07-24 20:44:00	4202	wig_to_bigWig	1.1.0	4195	Filter1	1.1.0
-371	2013-07-24 20:44:00	4207	wig_to_bigWig	1.1.0	4196	Filter1	1.1.0
-371	2013-07-24 20:44:00	4206	wig_to_bigWig	1.1.0	4198	Filter1	1.1.0
-371	2013-07-24 20:44:00	4182	wig_to_bigWig	1.1.0	4199	Filter1	1.1.0
-371	2013-07-24 20:44:00	4204	wig_to_bigWig	1.1.0	4200	Filter1	1.1.0
-371	2013-07-24 20:44:00	4205	wig_to_bigWig	1.1.0	4201	Filter1	1.1.0
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-375	2013-07-26 14:02:00	4288	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4292	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4298	heatmapper	1.3	4300		
-375	2013-07-26 14:02:00	4288	heatmapper	1.3	4301		
-375	2013-07-26 14:02:00	4292	heatmapper	1.3	4305		
-375	2013-07-26 14:02:00	4298	heatmapper	1.3	4311		
-380	2013-07-31 09:32:00	4346	bowtie2	0.1	4347	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1
-380	2013-07-31 09:32:00	4347	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	4350		
-380	2013-07-31 09:32:00	4347	toolshed.g2.bx.psu.edu/repos/bjoern-gruening/trim_galore/trim_galore/0.2.4.1	0.2.4.1	4351		
-385	2013-07-31 19:25:00	4371	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	4372		
-385	2013-07-31 19:25:00	4371	toolshed.g2.bx.psu.edu/repos/ryo-tas/macs14/peakcalling_macs14/1.4.1	1.4.1	4373		
-392	2013-07-31 20:28:00	4425	Summary_Statistics1	1.1.0	4427	Filter1	1.1.0
-392	2013-07-31 20:28:00	4424	Summary_Statistics1	1.1.0	4428	Filter1	1.1.0
-392	2013-07-31 20:28:00	4429	addValue	1.0.0	4428	Filter1	1.1.0
-392	2013-07-31 20:28:00	4431	Cut1	1.0.2	4430	mergeCols1	1.0.1
-392	2013-07-31 20:28:00	4433	mergeCols1	1.0.1	4432	addValue	1.0.0
-392	2013-07-31 20:28:00	4422	Cut1	1.0.2	4433	mergeCols1	1.0.1
-392	2013-07-31 20:28:00	4426	addValue	1.0.0	4435		
-392	2013-07-31 20:28:00	4427	Filter1	1.1.0	4435		
-392	2013-07-31 20:28:00	4428	Filter1	1.1.0	4435		
-394	2013-08-01 09:49:00	4446	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4449		
-394	2013-08-01 09:49:00	4446	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4451		
-397	2013-08-01 21:11:00	4472	methtools_filter	0.1.1	4469	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-397	2013-08-01 21:11:00	4472	methtools_filter	0.1.1	4470	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0
-397	2013-08-01 21:11:00	4471	methtools_dmr	0.1.1	4472	methtools_filter	0.1.1
-397	2013-08-01 21:11:00	4471	methtools_dmr	0.1.1	4472	methtools_filter	0.1.1
-397	2013-08-01 21:11:00	4468	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4474	smooth_running_window	0.1
-397	2013-08-01 21:11:00	4468	toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_intersectbed_bam/0.1.0	0.1.0	4475		
diff -r 12764915e1c5 -r 76251d1ccdcc utils.py
--- a/utils.py	Wed Sep 25 06:42:40 2019 -0400
+++ b/utils.py	Fri Oct 11 18:24:54 2019 -0400
@@ -3,11 +3,6 @@
 import json
 import h5py
 
-from keras.models import model_from_json, Sequential
-from keras.layers import Dense, GRU, Dropout
-from keras.layers.embeddings import Embedding
-from keras.layers.core import SpatialDropout1D
-from keras.optimizers import RMSprop
 from keras import backend as K
 
 
@@ -37,17 +32,6 @@
         workflows_file.write(workflow_paths_unique)
 
 
-def load_saved_model(model_config, model_weights):
-    """
-    Load the saved trained model using the saved network and its weights
-    """
-    # load the network
-    loaded_model = model_from_json(model_config)
-    # load the saved weights into the model
-    loaded_model.set_weights(model_weights)
-    return loaded_model
-
-
 def format_tool_id(tool_link):
     """
     Extract tool id from tool link
@@ -57,22 +41,6 @@
     return tool_id
 
 
-def get_HDF5(hf, d_key):
-    """
-    Read h5 file to get train and test data
-    """
-    return hf.get(d_key).value
-
-
-def save_HDF5(hf_file, d_key, data, d_type=""):
-    """
-    Save datasets as h5 file
-    """
-    if (d_type == 'json'):
-        data = json.dumps(data)
-    hf_file.create_dataset(d_key, data=data)
-
-
 def set_trained_model(dump_file, model_values):
     """
     Create an h5 file with the trained weights and associated dicts
@@ -100,44 +68,6 @@
         os.remove(file_path)
 
 
-def extract_configuration(config_object):
-    config_loss = dict()
-    for index, item in enumerate(config_object):
-        config_loss[index] = list()
-        d_config = dict()
-        d_config['loss'] = item['result']['loss']
-        d_config['params_config'] = item['misc']['vals']
-        config_loss[index].append(d_config)
-    return config_loss
-
-
-def get_best_parameters(mdl_dict):
-    """
-    Get param values (defaults as well)
-    """
-    lr = float(mdl_dict.get("learning_rate", "0.001"))
-    embedding_size = int(mdl_dict.get("embedding_size", "512"))
-    dropout = float(mdl_dict.get("dropout", "0.2"))
-    recurrent_dropout = float(mdl_dict.get("recurrent_dropout", "0.2"))
-    spatial_dropout = float(mdl_dict.get("spatial_dropout", "0.2"))
-    units = int(mdl_dict.get("units", "512"))
-    batch_size = int(mdl_dict.get("batch_size", "512"))
-    activation_recurrent = mdl_dict.get("activation_recurrent", "elu")
-    activation_output = mdl_dict.get("activation_output", "sigmoid")
-
-    return {
-        "lr": lr,
-        "embedding_size": embedding_size,
-        "dropout": dropout,
-        "recurrent_dropout": recurrent_dropout,
-        "spatial_dropout": spatial_dropout,
-        "units": units,
-        "batch_size": batch_size,
-        "activation_recurrent": activation_recurrent,
-        "activation_output": activation_output,
-    }
-
-
 def weighted_loss(class_weights):
     """
     Create a weighted loss function. Penalise the misclassification
@@ -152,27 +82,6 @@
     return weighted_binary_crossentropy
 
 
-def set_recurrent_network(mdl_dict, reverse_dictionary, class_weights):
-    """
-    Create a RNN network and set its parameters
-    """
-    dimensions = len(reverse_dictionary) + 1
-    model_params = get_best_parameters(mdl_dict)
-
-    # define the architecture of the neural network
-    model = Sequential()
-    model.add(Embedding(dimensions, model_params["embedding_size"], mask_zero=True))
-    model.add(SpatialDropout1D(model_params["spatial_dropout"]))
-    model.add(GRU(model_params["units"], dropout=model_params["spatial_dropout"], recurrent_dropout=model_params["recurrent_dropout"], activation=model_params["activation_recurrent"], return_sequences=True))
-    model.add(Dropout(model_params["dropout"]))
-    model.add(GRU(model_params["units"], dropout=model_params["spatial_dropout"], recurrent_dropout=model_params["recurrent_dropout"], activation=model_params["activation_recurrent"], return_sequences=False))
-    model.add(Dropout(model_params["dropout"]))
-    model.add(Dense(dimensions, activation=model_params["activation_output"]))
-    optimizer = RMSprop(lr=model_params["lr"])
-    model.compile(loss=weighted_loss(class_weights), optimizer=optimizer)
-    return model, model_params
-
-
 def compute_precision(model, x, y, reverse_data_dictionary, next_compatible_tools, usage_scores, actual_classes_pos, topk):
     """
     Compute absolute and compatible precision