Repository revision
71:d96f6c9a39e0

Repository 's_mart'
hg clone https://toolshed.g2.bx.psu.edu/repos/yufei-luo/s_mart

restrict transcript list tool metadata
Miscellaneous
Select the features which are located in a given locus.
restrictTranscriptList
toolshed.g2.bx.psu.edu/repos/yufei-luo/s_mart/restrictTranscriptList/1.0.0
1.0.0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/yufei-luo/s_mart/restrictTranscriptList/1.0.0 (this tool)
restrictTranscriptList
Requirements (dependencies defined in the <requirements> tag set)
name version type
PYTHONPATH not provided set_environment
Additional information about this tool
../Java/Python/restrictTranscriptList.py -i $formatType.inputFileName
		#if $formatType.FormatInputFileName == 'bed':
			-f bed
		#elif $formatType.FormatInputFileName == 'gff':
			-f gff
		#elif $formatType.FormatInputFileName == 'gff2':
			-f gff2
		#elif $formatType.FormatInputFileName == 'gff3':
			-f gff3
		#elif $formatType.FormatInputFileName == 'sam':
			-f sam
		#elif $formatType.FormatInputFileName == 'gtf':
			-f gtf
		#end if
		
  		#if $OptionChrom.Chrom == "Yes":
			-c $OptionChrom.ChromName
  		#end if
  				
  		#if $OptionStart.start == "Yes":
			-s $OptionStart.startValue
  		#end if
  	
  		#if $OptionEnd.end == "Yes":
			-e $OptionEnd.endValue
  		#end if
  		
  	-o $outputFile  
  
  
python
False
False
Functional tests
name inputs outputs required files
Test-1 OptionStart|start: No
OptionEnd|end: No
formatType|FormatInputFileName: gtf
OptionChrom|ChromName: I
formatType|inputFileName: genes.gtf
OptionChrom|Chrom: Yes
outputFile: exp_restrictTranscriptList.gff3
genes.gtf
exp_restrictTranscriptList.gff3