Repository revision
71:d96f6c9a39e0

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

clean transcript file tool metadata
Miscellaneous
Clean a transcript file so that it is useable for S-MART.
CleanTranscriptFile
toolshed.g2.bx.psu.edu/repos/yufei-luo/s_mart/CleanTranscriptFile/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/CleanTranscriptFile/1.0.0 (this tool)
CleanTranscriptFile
Requirements (dependencies defined in the <requirements> tag set)
name version type
PYTHONPATH not provided set_environment
Additional information about this tool
../Java/Python/CleanTranscriptFile.py -i $formatType.inputFileName 
		#if $formatType.FormatInputFileName == 'gff':
		 	-f gff
		#elif $formatType.FormatInputFileName == 'gtf':
			-f gtf
		#elif $formatType.FormatInputFileName == 'gff3':
			-f gff3
		#end if	
		#if $optionType.type == 'Yes':
			-t $optionType.value
		#end if 
		-o $outputFile 
	
python
False
False
Functional tests
name inputs outputs required files
Test-1 formatType|inputFileName: genes.gtf
optionType|type: No
formatType|FormatInputFileName: gtf
outputFile: exp_cleantranscriptfile_genes.gtf
genes.gtf
exp_cleantranscriptfile_genes.gtf