diff markersSelection.py @ 5:af4f63f27c77 draft

planemo upload for repository https://github.com/sblanck/MPAgenomics4Galaxy/tree/master/mpagenomics_wrappers commit 11d660a2de749dae548b2fae0dd81f9f2b2c4b4f

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/markersSelection.py	Wed Apr 08 15:34:17 2020 +0000
@@ -0,0 +1,34 @@
+import os
+import sys
+import subprocess
+
+def main():
+
+    inputdata=sys.argv[1]
+    response=sys.argv[2]
+    tmp_dir=sys.argv[3]
+    nbfold=sys.argv[4]
+    loss=sys.argv[5]
+    outputlog=sys.argv[6] 
+    output=sys.argv[7]
+    log=sys.argv[8]
+    
+    script_dir=os.path.dirname(os.path.abspath(__file__))
+        
+    if (outputlog=="TRUE"):
+        errfile=open(log,'w')
+    else:
+        errfile=open(os.path.join(tmp_dir,"errfile.log"),'w')
+    
+ 
+    retcode=subprocess.call(["Rscript", os.path.join(script_dir,"markersSelection.R"), inputdata, response, tmp_dir, nbfold, loss, output], stdout = errfile, stderr = errfile)
+    
+#  if (plot=="TRUE"):
+#      shutil.copy(os.path.join(tmp_dir,"mpagenomics","Rplots.pdf"), pdffigures)
+    
+    errfile.close()
+       
+    sys.exit(retcode)
+
+if __name__ == "__main__":
+    main()
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