| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.10+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.10 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.9+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.9+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.9 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.4.0 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.3.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.3.0 |
| bcftools_annotate |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bcftools | 1.10 | package |
| htslib | 1.10 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_file: annotate.vcf sec_annofile|columns: CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL sec_annofile|annofile|annotations: annotate.tab sec_annofile|annofile|header_file: annotate.hdr sec_annofile|annofile|anno_fmt: tab output_type: v |
name: value |
annotate.vcf annotate.tab annotate.hdr value |
| Test-2 |
input_file: annotate.vcf sec_annofile|columns: CHROM,FROM,TO,T_STR sec_annofile|annofile|annotations: annotate2.tab sec_annofile|annofile|header_file: annotate.hdr sec_annofile|annofile|anno_fmt: tab output_type: v |
name: value |
annotate.vcf annotate2.tab annotate.hdr value |
| Test-3 |
input_file: annotate.vcf sec_annofile|columns: STR,ID,QUAL,FILTER sec_annofile|annofile|annotations: annots.vcf sec_annofile|annofile|anno_fmt: vcf output_type: v |
name: value |
annotate.vcf annots.vcf value |
| Test-4 |
input_file: annotate.vcf sec_annofile|columns: STR,ID,QUAL,FILTER sec_annofile|annofile|annotations: annots.bcf sec_annofile|annofile|anno_fmt: vcf output_type: v |
name: value |
annotate.vcf annots.bcf value |
| Test-5 |
input_file: annotate2.vcf sec_annofile|columns: ID,QUAL,FILTER,INFO,FMT sec_annofile|annofile|annotations: annots2.vcf sec_annofile|annofile|anno_fmt: vcf output_type: v |
name: value |
annotate2.vcf annots2.vcf value |
| Test-6 |
input_file: annotate2.vcf sec_annofile|columns: ID,QUAL,FILTER,INFO,FMT sec_annofile|annofile|annotations: annots2.vcf sec_annofile|annofile|anno_fmt: vcf sec_restrict|samples: A output_type: v |
name: value |
annotate2.vcf annots2.vcf value |
| Test-7 |
input_file: annotate3.vcf sec_annofile|annofile|anno_fmt: none sec_annotate|remove: ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL output_type: v |
name: value |
annotate3.vcf value |
| Test-8 |
input_file: annotate3.vcf sec_annofile|annofile|anno_fmt: none sec_annotate|remove: FORMAT output_type: v |
name: value |
annotate3.vcf value |