Mercurial > repos > trinity_ctat > ctat_lncrna

changeset 7:018041e308fe draft

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Uploaded
author trinity_ctat
date Fri, 22 Jun 2018 18:55:00 -0400
parents 0d9726320598
children bddb36ef9fb3
files ctat_lncrna.xml
diffstat 1 files changed, 4 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/ctat_lncrna.xml	Fri Jun 22 15:07:31 2018 -0400
+++ b/ctat_lncrna.xml	Fri Jun 22 18:55:00 2018 -0400
@@ -3,6 +3,7 @@
     <description>Filters a high-quality set of lncRNA from reconstructed RNA-seq data</description>
     <requirements>
     <requirement type="package">ctat-lncrna</requirement>
+    <requirement type="package">numpy</requirement>
     </requirements>
     <command detect_errors="default">
       <![CDATA[
@@ -11,9 +12,9 @@
      --config "${assembly.fields.path}" 
      #end if
 
-     --bedtools "$tool_dependency_dir/_conda" 
-     --lastz "$tool_dependency_dir/_conda"
-     --liftover "$tool_dependency_dir/_conda"
+     --bedtools "$__root_dir__/database/dependencies/_conda/envs/__ctat-lncrna@_uv_/bin" 
+     --lastz "$__root_dir__/database/dependencies/_conda/envs/__ctat-lncrna@_uv_/bin"
+     --liftover "$__root_dir__/database/dependencies/_conda/envs/__ctat-lncrna@_uv_/bin"
 
      #if str($assembly) != "":
          --assembly "${assembly.fields.value}"