# HG changeset patch # User metaboflow_cam # Date 1569315596 14400 # Node ID 678d1e95d4481b476349af887f924f8180e0f6af # Parent 1f2508f5423a6daee7b1be6dbd8a24ca8a81b0d2 Deleted selected files diff -r 1f2508f5423a -r 678d1e95d448 isolab --- a/isolab Tue Sep 24 04:59:47 2019 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1131 +0,0 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GitHub - wanchanglin/isolab - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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isolab for Galaxy

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This is Galaxy tool for R package -IsotopicLabelling -which analyses mass spectrometric isotopic patterns obtained following -isotopic labelling experiments. For more details, see the -IsotopicLabelling: an R package for the analysis of MS isotopic patterns of -labelled -analytes.

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Installation

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    Install Galaxy under Linux.

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    Install conda under -Linux. conda is used to install requirements of this tool.

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    Use git to clone this tool

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    git clone https://github.com/wanchanglin/isolab.git
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    Add this tool's location into Galaxy' tool config file: -~/Galaxy/config/tool_conf.xml. For example, one simplified -tool_conf.xml looks like:

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    <?xml version='1.0' encoding='utf-8'?>
-<toolbox monitor="true">
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-  <section id="getext" name="Get Data">
-    <tool file="data_source/upload.xml" />
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-  <section id="MyTools" name="My Tools">
-    <tool file="/path/to/isolab/isolab.xml" />
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-</toolbox>
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    The Galaxy tool uses R packages optparse, -WriteXLS and gsubfn. All of these packages will be installed by -conda in its virtual environment. Two R packages IsotopicLabelling and -ecipes are already included.

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    Some test data are located in test-data.

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Notes

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  • planemo test compares the history results in test-data/res produced by -shell scripts in test. (27-03-2019, Wed)
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  • White spaces in groups input: Group factor delimiter is comma. No any -extra white spaces are allowed otherwise an error will be encountered. -Note that isolab.sh has no problem with white spaces. Probably it is -'Cheetah' or Galaxy's text input problem. (31-05-2018, Thu)
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Authors, contributors & contacts

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