Workflow: workflow.cwl
Fetched 2023-01-09 12:00:52 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| tree | String[] | ||
| in_gff | File | ||
| in_fasta | File | ||
| gap_lines | File | ||
| scientific_name | String[] | ||
| url_genomic_gff | String[] | ||
| gff_release_number | Integer |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| faToTwoBit |
faToTwoBit.cwl
(CommandLineTool)
|
||
| gap2bigwig |
gap2bigwig.cwl
(CommandLineTool)
|
||
| add_metadata |
add_metadata.cwl
(CommandLineTool)
|
||
| generate-names |
generate-names.cwl
(CommandLineTool)
|
||
| samtools_faidx |
samtools_faidx.cwl
(CommandLineTool)
|
||
| add-bw-track_gc |
add-bw-track_gc.cwl
(CommandLineTool)
|
||
| prepare-refseqs |
prepare-refseqs.cwl
(CommandLineTool)
|
||
| GCcontent2bigwig |
GCcontent2bigwig.cwl
(CommandLineTool)
|
||
| flatfile-to-json |
flatfile-to-json.cwl
(CommandLineTool)
|
||
| add-bw-track_gaps |
add-bw-track_gaps.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| OUT_2bi | File | ||
| OUT_seq | Directory | ||
| OUT_names | Directory | ||
| OUT_tracks | Directory | ||
| OUT_gc_bigwig | File | ||
| OUT_gaps_bigwig | File | ||
| OUT_tracks_conf | File | ||
| OUT_trackList_json | File | ||
| OUT_trackList_json_bak | File |
Permalink:
https://w3id.org/cwl/view/git/7562bd2c6900b30bce6c6f78951cd76d28218f47/flow_apollo2_data_processing/processing/workflow.cwl
