| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/yhoogstrate/crossmap/crossmap/0.2.d (this tool) |
| toolshed.g2.bx.psu.edu/repos/yhoogstrate/crossmap/crossmap/0.2.c |
| toolshed.g2.bx.psu.edu/repos/yhoogstrate/crossmap/crossmap/0.2.b |
| toolshed.g2.bx.psu.edu/repos/yhoogstrate/crossmap/crossmap/0.2.a |
| crossmap |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| ucsc_tools | 312 | package |
| python | 2.7 | package |
| crossmap | 0.2 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
multiple|seq_source|input: test_bam_01_input_a.sam multiple|input_format: bam multiple|include_fails: False multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bam_01_output_a.sam output_unmapped: test_bam_01_output_a.unmap.sam |
test_bam_01_input_a.sam aToB.over.chain test_bam_01_output_a.sam test_bam_01_output_a.unmap.sam |
| Test-2 |
multiple|seq_source|input: test_bam_01_input_a.sam multiple|input_format: sam multiple|include_fails: False multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bam_01_output_a.sam output_unmapped: test_bam_01_output_a.unmap.sam |
test_bam_01_input_a.sam aToB.over.chain test_bam_01_output_a.sam test_bam_01_output_a.unmap.sam |
| Test-3 |
multiple|seq_source|input: test_bed_01_input_a.bed multiple|input_format: bed multiple|include_fails: False multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bed_01_output_a__only-matches.bed |
test_bed_01_input_a.bed aToB.over.chain test_bed_01_output_a__only-matches.bed |
| Test-4 |
multiple|seq_source|input: test_bed_01_input_a.bed multiple|input_format: bed multiple|include_fails: True multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bed_01_output_a__all.bed |
test_bed_01_input_a.bed aToB.over.chain test_bed_01_output_a__all.bed |
| Test-5 |
multiple|seq_source|input: test_bed_02_input_a.bed multiple|input_format: bed multiple|include_fails: False multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bed_02_output_a__only-matches.bed |
test_bed_02_input_a.bed aToB.over.chain test_bed_02_output_a__only-matches.bed |
| Test-6 |
multiple|seq_source|input: test_bed_02_input_a.bed multiple|input_format: bed multiple|include_fails: True multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bed_02_output_a__all.bed |
test_bed_02_input_a.bed aToB.over.chain test_bed_02_output_a__all.bed |
| Test-7 |
multiple|seq_source|input: test_bigwig_01_input_a.bw multiple|input_format: bigwig multiple|include_fails: False multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_bigwig_01_output_a.bw output2: test_bigwig_01_output_a.sorted.bgr |
test_bigwig_01_input_a.bw aToB.over.chain test_bigwig_01_output_a.bw test_bigwig_01_output_a.sorted.bgr |
| Test-8 |
multiple|seq_source|input: test_gff_01_input_a.gtf multiple|input_format: gff multiple|include_fails: False multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_gff_01_output_a__only-matches.gtf |
test_gff_01_input_a.gtf aToB.over.chain test_gff_01_output_a__only-matches.gtf |
| Test-9 |
multiple|seq_source|input: test_gff_01_input_a.gtf multiple|input_format: gff multiple|include_fails: True multiple|seq_source|input_chain: aToB.over.chain multiple|seq_source|index_source: history |
output: test_gff_01_output_a__all.gtf |
test_gff_01_input_a.gtf aToB.over.chain test_gff_01_output_a__all.gtf |
| Test-10 |
multiple|seq_source|input_chain: test_vcf_01.over.chain multiple|include_fails: False multiple|seq_source|index_source: history_all multiple|input_format: vcf multiple|seq_source|input_fasta: test_vcf_01.fasta multiple|seq_source|input: test_vcf_01_input.vcf |
output: test_vcf_01_output.vcf output_unmapped: test_vcf_01_output.vcf.unmap |
test_vcf_01_input.vcf test_vcf_01.over.chain test_vcf_01.fasta test_vcf_01_output.vcf test_vcf_01_output.vcf.unmap |