mirror of
https://github.com/MillironX/nf-core_modules.git
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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
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command: nextflow run ./tests/modules/entrezdirect/esearch -entry test_entrezdirect_esearch_pubmed -c ./tests/config/nextflow.config -c ./tests/modules/entrezdirect/esearch/nextflow.config
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tags:
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- entrezdirect/esearch
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- entrezdirect
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files:
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- path: output/entrezdirect/test_pubmed.xml
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contains:
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- "<ENTREZ_DIRECT>"
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- "<Db>pubmed</Db>"
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- "<WebEnv>"
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- "<QueryKey>"
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- "<Step>"
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- "<Count>"
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- "</ENTREZ_DIRECT>"
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- name: entrezdirect esearch test_entrezdirect_esearch_genome
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command: nextflow run ./tests/modules/entrezdirect/esearch -entry test_entrezdirect_esearch_genome -c ./tests/config/nextflow.config -c ./tests/modules/entrezdirect/esearch/nextflow.config
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tags:
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- entrezdirect/esearch
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- entrezdirect
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files:
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- path: output/entrezdirect/test_genome.xml
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contains:
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- "<ENTREZ_DIRECT>"
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- "<Db>genome</Db>"
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- "<WebEnv>"
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- "<QueryKey>"
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- "<Count>"
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- "<Step>"
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- "</ENTREZ_DIRECT>"
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- name: entrezdirect esearch test_entrezdirect_esearch_assembly
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command: nextflow run ./tests/modules/entrezdirect/esearch -entry test_entrezdirect_esearch_assembly -c ./tests/config/nextflow.config -c ./tests/modules/entrezdirect/esearch/nextflow.config
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tags:
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- entrezdirect/esearch
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- entrezdirect
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files:
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- path: output/entrezdirect/test_assembly.xml
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contains:
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- "<ENTREZ_DIRECT>"
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- "<Db>assembly</Db>"
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- "<WebEnv>"
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- "<QueryKey>"
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- "<Count>"
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- "<Step>"
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- "</ENTREZ_DIRECT>"
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