mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-15 06:03:10 +00:00
4ed5dc4593
* added module files * latest version * latest version * latest version * latest version * updated test, failing * added comment on why to use tail -n+3 * same as latest test * moved args to the end of script * updated test * double quotes for esearch input * removed tail -n+3, stderr is redirected by nextflow * changed single to double quotes * Update modules/entrezdirect/esearch/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/entrezdirect/esearch/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update meta.yml removed default from database parameter Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
47 lines
1.6 KiB
YAML
47 lines
1.6 KiB
YAML
- name: entrezdirect esearch test_entrezdirect_esearch_pubmed
|
|
command: nextflow run ./tests/modules/entrezdirect/esearch -entry test_entrezdirect_esearch_pubmed -c ./tests/config/nextflow.config -c ./tests/modules/entrezdirect/esearch/nextflow.config
|
|
tags:
|
|
- entrezdirect/esearch
|
|
- entrezdirect
|
|
files:
|
|
- path: output/entrezdirect/test_pubmed.xml
|
|
contains:
|
|
- "<ENTREZ_DIRECT>"
|
|
- "<Db>pubmed</Db>"
|
|
- "<WebEnv>"
|
|
- "<QueryKey>"
|
|
- "<Step>"
|
|
- "<Count>"
|
|
- "</ENTREZ_DIRECT>"
|
|
|
|
- name: entrezdirect esearch test_entrezdirect_esearch_genome
|
|
command: nextflow run ./tests/modules/entrezdirect/esearch -entry test_entrezdirect_esearch_genome -c ./tests/config/nextflow.config -c ./tests/modules/entrezdirect/esearch/nextflow.config
|
|
tags:
|
|
- entrezdirect/esearch
|
|
- entrezdirect
|
|
files:
|
|
- path: output/entrezdirect/test_genome.xml
|
|
contains:
|
|
- "<ENTREZ_DIRECT>"
|
|
- "<Db>genome</Db>"
|
|
- "<WebEnv>"
|
|
- "<QueryKey>"
|
|
- "<Count>"
|
|
- "<Step>"
|
|
- "</ENTREZ_DIRECT>"
|
|
|
|
- name: entrezdirect esearch test_entrezdirect_esearch_assembly
|
|
command: nextflow run ./tests/modules/entrezdirect/esearch -entry test_entrezdirect_esearch_assembly -c ./tests/config/nextflow.config -c ./tests/modules/entrezdirect/esearch/nextflow.config
|
|
tags:
|
|
- entrezdirect/esearch
|
|
- entrezdirect
|
|
files:
|
|
- path: output/entrezdirect/test_assembly.xml
|
|
contains:
|
|
- "<ENTREZ_DIRECT>"
|
|
- "<Db>assembly</Db>"
|
|
- "<WebEnv>"
|
|
- "<QueryKey>"
|
|
- "<Count>"
|
|
- "<Step>"
|
|
- "</ENTREZ_DIRECT>"
|