Workflow: hecil.cwl
Fetched 2023-01-09 05:36:19 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 |
|---|---|---|---|
| bwa | File | ||
| corr_out | File | ||
| samtools | File | ||
| out_err_0 | String | ||
| out_err_1 | String | ||
| out_err_2 | String | ||
| out_err_3 | String | ||
| out_err_4 | String | ||
| out_sam_0 | String | ||
| out_sam_1 | String | ||
| out_sam_2 | String | ||
| out_sam_3 | String | ||
| out_sam_4 | String | ||
| ref_fasta | File | ||
| query_fastq | File | ||
| Split_Pileup | File | ||
| fastq_reduce | File | ||
| out_bam_file | File | ||
| out_sam_file | File | ||
| sam_cat_file | File | ||
| Correction_py | File | ||
| query_fastq_0 | File | ||
| query_fastq_1 | File | ||
| query_fastq_2 | File | ||
| query_fastq_3 | File | ||
| query_fastq_4 | File | ||
| ref_fasta_out | File[] | ||
| fasta_reduce_file | File | ||
| Create_SubsetPileup | File | ||
| Create_Corrected_All_Reads | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| perl |
perl.cwl
(CommandLineTool)
|
||
| sam_cat |
sam-cat.cwl
(CommandLineTool)
|
||
| bwa_index |
bwa-index.cwl
(CommandLineTool)
|
||
| bwa_mem_0 |
bwa-mem.cwl
(CommandLineTool)
|
||
| bwa_mem_1 |
bwa-mem.cwl
(CommandLineTool)
|
||
| bwa_mem_2 |
bwa-mem.cwl
(CommandLineTool)
|
||
| bwa_mem_3 |
bwa-mem.cwl
(CommandLineTool)
|
||
| bwa_mem_4 |
bwa-mem.cwl
(CommandLineTool)
|
||
| sam_cat_err |
sam-cat-err.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| cat_all_stderr | File | ||
| cat_all_stdout | File |
Permalink:
https://w3id.org/cwl/view/git/a5744386067e88f18b37a4bfbe8af07e888d8c0e/hecil.cwl
