Mercurial > repos > galaxyp > custom_pro_db_annotation_data_manager

changeset 4:b42974daa659 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
author galaxyp
date Thu, 28 Jan 2016 18:46:50 -0500
parents af0a098e15bd
children a0ca66b32792
files data_manager/customProDB_annotation.R data_manager/customProDB_annotation.xml
diffstat 2 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/data_manager/customProDB_annotation.R	Wed Jan 27 16:46:54 2016 -0500
+++ b/data_manager/customProDB_annotation.R	Thu Jan 28 18:46:50 2016 -0500
@@ -69,7 +69,7 @@
     
     outputPath = paste(dbkey, "/customProDB", sep="")
     output = list(data_tables = list())
-    output[["data_tables"]][["customProDB"]]=c(path=outputPath, name=dbkey_description, dbkey=dbkey)
+    output[["data_tables"]][["customProDB"]]=c(path=outputPath, name=dbkey_description, dbkey=dbkey, value=dbkey)
     write(toJSON(output), file=outputFile)
 }
 
--- a/data_manager/customProDB_annotation.xml	Wed Jan 27 16:46:54 2016 -0500
+++ b/data_manager/customProDB_annotation.xml	Thu Jan 28 18:46:50 2016 -0500
@@ -3,7 +3,7 @@
     <command interpreter="Rscript --vanilla">customProDB_annotation.R
       --outputFile "${out_file}"
       --dbkey "${dbkey}"
-      --dbkey_description "${ dbkey.get_display_text() }"
+      --dbkey_description ${ dbkey.get_display_text() }
       2&gt;&amp;1
     </command>
     <stdio>