| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/moabs/moabs/1.3.4.6+galaxy1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/moabs/moabs/1.3.4.6 |
| moabs |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| moabs | 1.3.4.6 | package |
| Additional information about this tool |
#if str( $mcomp_advanced.doComp.compare_selector ) == "0":
cp -f '$mcomp_advanced.doComp.compFile' comp.g1.vs.g2.txt &&
#end if
moabs -v 1 --def MMAP.p="\${GALAXY_SLOTS:-4}" --def MCALL.p="\${GALAXY_SLOTS:-4}" --def MCOMP.p="\${GALAXY_SLOTS:-4}" --cf '$cfg_file' &&
#if "1" in $output_selector:
cp -f dmc_M2_g1.G.bed_vs_g2.G.bed.txt '$output1' &&
#end if
#if "2" in $output_selector:
cp -f dmr_M2_g1.G.bed_vs_g2.G.bed.txt '$output2' &&
#end if
#if "3" in $output_selector:
cp -f comp.g1.vs.g2.txt '$output3' &&
#end if
echo Done
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
reference_source|ref_file: chr11.fa reference_source|reference_source_selector: history g1_fastq_0|fastq_input|fastq_input1: WTPE1.fastq.gz g1_fastq_0|fastq_input|fastq_input_selector: single g1_fastq_1|fastq_input|fastq_input1: WTPE2.fastq.gz g1_fastq_1|fastq_input|fastq_input_selector: single g2_fastq_0|fastq_input|fastq_input1: TKO2PE1.fastq.gz g2_fastq_0|fastq_input|fastq_input_selector: single g2_fastq_1|fastq_input|fastq_input1: TKO2PE2.fastq.gz g2_fastq_1|fastq_input|fastq_input_selector: single mcomp_advanced|doComp|compFile: SE_comp.g1.vs.g2.txt mcomp_advanced|doComp|compare_selector: 0 output_selector: ['1', '2', '3', '4', '5'] |
name: value name: value name: value |
chr11.fa WTPE1.fastq.gz WTPE2.fastq.gz TKO2PE1.fastq.gz TKO2PE2.fastq.gz SE_comp.g1.vs.g2.txt value |
| Test-2 |
reference_source|ref_file: seg.fa reference_source|reference_source_selector: history g1_fastq_0|fastq_input|fastq_input1: 6_all_1.fq.gz g1_fastq_0|fastq_input|fastq_input2: 6_all_2.fq.gz g1_fastq_0|fastq_input|fastq_input_selector: paired g2_fastq_0|fastq_input|fastq_input1: 8_all_1.fq.gz g2_fastq_0|fastq_input|fastq_input2: 8_all_2.fq.gz g2_fastq_0|fastq_input|fastq_input_selector: paired mcomp_advanced|doComp|compFile: PE_comp.g1.vs.g2.txt mcomp_advanced|doComp|compare_selector: 0 output_selector: ['1', '2', '3'] |
name: value name: value name: value |
seg.fa 6_all_1.fq.gz 6_all_2.fq.gz 8_all_1.fq.gz 8_all_2.fq.gz PE_comp.g1.vs.g2.txt value |
| Test-3 |
reference_source|ref_file: seg.fa reference_source|reference_source_selector: history g1_fastq_0|fastq_input|fastq_input1: paired collection g1_fastq_0|fastq_input|fastq_input_selector: paired_collection g2_fastq_0|fastq_input|fastq_input1: paired collection g2_fastq_0|fastq_input|fastq_input_selector: paired_collection mcomp_advanced|doComp|compFile: PE_comp.g1.vs.g2.txt mcomp_advanced|doComp|compare_selector: 0 output_selector: ['1', '2', '3'] |
name: value name: value name: value |
seg.fa 6_all_1.fq.gz 6_all_2.fq.gz 8_all_1.fq.gz 8_all_2.fq.gz PE_comp.g1.vs.g2.txt value |
| Test-4 |
reference_source|ref_file: chr11 reference_source|reference_source_selector: cached g1_fastq_0|fastq_input|fastq_input1: WTPE1.fastq.gz g1_fastq_0|fastq_input|fastq_input_selector: single g1_fastq_1|fastq_input|fastq_input1: WTPE2.fastq.gz g1_fastq_1|fastq_input|fastq_input_selector: single g2_fastq_0|fastq_input|fastq_input1: TKO2PE1.fastq.gz g2_fastq_0|fastq_input|fastq_input_selector: single g2_fastq_1|fastq_input|fastq_input1: TKO2PE2.fastq.gz g2_fastq_1|fastq_input|fastq_input_selector: single mcomp_advanced|doComp|compFile: SE_comp.g1.vs.g2.txt mcomp_advanced|doComp|compare_selector: 0 output_selector: ['1', '2', '3'] |
name: value name: value name: value |
WTPE1.fastq.gz WTPE2.fastq.gz TKO2PE1.fastq.gz TKO2PE2.fastq.gz SE_comp.g1.vs.g2.txt value |