| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/presto_filterseq/presto_filterseq/0.6.2+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/presto_filterseq/presto_filterseq/0.6.2 |
| toolshed.g2.bx.psu.edu/repos/iuc/presto_filterseq/presto_filterseq/0.5.4 |
| presto_filterseq |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| presto | 0.6.2 | package |
| Additional information about this tool |
ln -s '$fastq_in' in.fastq &&
FilterSeq.py '$cc.command'
--nproc "\${GALAXY_SLOTS:-1}"
-s in.fastq
#if $varExists('cc.q')
-q '$cc.q'
#end if
#if $getVar('cc.inner', False)
--inner
#end if
#if $varExists('cc.win')
--win '$cc.win'
#end if
#if $getVar('cc.reverse', False)
--reverse
#end if
#if $varExists('cc.n')
-n '$cc.n'
#end if
--outdir=.
--outname=tmp_filter_seq
#if $capture_log
--log '$log_out'
#end if
&&
mv ./tmp_filter_seq_${cc.command}-pass.fastq $fastq_out
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
fastq_in: presto_filterseq_test_in.fastq cc|n: 299 cc|command: length |
name: value |
presto_filterseq_test_in.fastq value |
| Test-2 |
fastq_in: presto_filterseq_test_in.fastq cc|n: 281 cc|command: missing |
name: value |
presto_filterseq_test_in.fastq value |
| Test-3 |
fastq_in: presto_filterseq_test_in.fastq cc|n: 8 cc|command: repeats |
name: value |
presto_filterseq_test_in.fastq value |
| Test-4 |
fastq_in: presto_filterseq_test_in.fastq cc|q: 30 cc|command: quality |
name: value |
presto_filterseq_test_in.fastq value |
| Test-5 |
fastq_in: presto_filterseq_test_in.fastq cc|q: 30 cc|command: maskqual |
name: value |
presto_filterseq_test_in.fastq value |
| Test-6 |
fastq_in: presto_filterseq_test_in.fastq cc|q: 30 cc|command: trimqual |
name: value |
presto_filterseq_test_in.fastq value |