diff selection.py @ 8:d5ed62b4d3ac draft default tip

planemo upload for repository https://github.com/sblanck/MPAgenomics4Galaxy/tree/master/mpagenomics_wrappers commit 689d0d8dc899a683ee18700ef385753559850233

--- a/selection.py	Fri Apr 10 13:32:59 2020 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,38 +0,0 @@
-import os
-import sys
-import subprocess
-import shutil
-
-def main():
-
-    input_file=sys.argv[1]
-    tmp_dir=sys.argv[4]
-    script_dir=os.path.dirname(os.path.abspath(__file__))
-    plot=sys.argv[11]
-    pdffigures=sys.argv[13]
-    outputlog=sys.argv[14]
-    log=sys.argv[15]
-    user=sys.argv[16]
-    package=sys.argv[17]
-        
-    iFile=open(input_file,'r')
-    dataSetLine=iFile.readline()
-    dataset=dataSetLine.split("\t")[1]
-    iFile.close()    
-        
-    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,"selection.R"), dataset, sys.argv[2], sys.argv[3], sys.argv[4], sys.argv[5], sys.argv[6], sys.argv[7], sys.argv[8], sys.argv[9], sys.argv[10], sys.argv[11], sys.argv[12],sys.argv[16],package], stdout = errfile, stderr = errfile)
-    
-    if (plot=="TRUE"):
-        shutil.copy(os.path.join(tmp_dir,"mpagenomics",user,"Rplots.pdf"), pdffigures)
-    
-    errfile.close()
-       
-    sys.exit(retcode)
-
-if __name__ == "__main__":
-    main()