Mercurial > repos > thondeboer > neat_genreads

changeset 4:110fc7a9a016 draft

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planemo upload commit e96b43f96afce6a7b7dfd4499933aad7d05c955e-dirty
author thondeboer
date Tue, 15 May 2018 16:45:22 -0400
parents edca797fa2b2
children 98195057e06d
files computeFraglen.xml computeGC.xml genMutModel.xml genSeqErrorModel.xml neat_genreads.xml
diffstat 5 files changed, 10 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/computeFraglen.xml	Tue May 15 16:41:15 2018 -0400
+++ b/computeFraglen.xml	Tue May 15 16:45:22 2018 -0400
@@ -5,7 +5,8 @@
   <description>computes empirical fragment length distribution from sample data in BAM format. Creates model file for use in NEAT-genReads</description>
   <requirements>
     <requirement type="package" version="0.1.19">samtools</requirement>
-    <requirement type="package" version="1.9.1">numpy</requirement>
+    <requirement type="package">numpy</requirement>
+    <requirement type="package">scipy</requirement>
   </requirements>
   <command detect_errors="exit_code">
     <![CDATA[
--- a/computeGC.xml	Tue May 15 16:41:15 2018 -0400
+++ b/computeGC.xml	Tue May 15 16:45:22 2018 -0400
@@ -5,7 +5,8 @@
   <description>computes GC% coverage bias distribution from sample in BAM format. Creates model file for use in NEAT-genReads</description>
   <requirements>
     <requirement type="package" version="2.25.0">bedtools</requirement>
-    <requirement type="package" version="1.9.1">numpy</requirement>
+    <requirement type="package">numpy</requirement>
+    <requirement type="package">scipy</requirement>
   </requirements>
   <command detect_errors="exit_code">
     <![CDATA[
--- a/genMutModel.xml	Tue May 15 16:41:15 2018 -0400
+++ b/genMutModel.xml	Tue May 15 16:45:22 2018 -0400
@@ -4,7 +4,8 @@
 	  profile="16.04">
   <description>generates a mutation model based on provided mutations. Creates model file for use in NEAT-genReads</description>
   <requirements>
-    <requirement type="package" version="1.9.1">numpy</requirement>
+    <requirement type="package">numpy</requirement>
+    <requirement type="package">scipy</requirement>
     <requirement type="package">matplotlib</requirement>
   </requirements>
   <command detect_errors="exit_code">
--- a/genSeqErrorModel.xml	Tue May 15 16:41:15 2018 -0400
+++ b/genSeqErrorModel.xml	Tue May 15 16:45:22 2018 -0400
@@ -4,7 +4,8 @@
 	  profile="16.04">
   <description>generates sequence error model for genReads. Creates model file for use in NEAT-genReads</description>
   <requirements>
-    <requirement type="package" version="1.9.1">numpy</requirement>
+    <requirement type="package">numpy</requirement>
+    <requirement type="package">scipy</requirement>
     <requirement type="package">matplotlib</requirement>
   </requirements>
   <command detect_errors="exit_code">
--- a/neat_genreads.xml	Tue May 15 16:41:15 2018 -0400
+++ b/neat_genreads.xml	Tue May 15 16:45:22 2018 -0400
@@ -4,7 +4,8 @@
 	  profile="16.04">
   <description>is a fine-grained read simulator</description>
   <requirements>
-    <requirement type="package" version="1.9.1">numpy</requirement>
+    <requirement type="package">numpy</requirement>
+    <requirement type="package">scipy</requirement>
   </requirements>
   <command detect_errors="exit_code">
     <![CDATA[