Mercurial > repos > galaxyp > mz_to_sqlite
comparison mz_to_sqlite.xml @ 4:f5c632894818 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mz_to_sqlite commit 75b9f57bf0b41b2a0b1e1c9f73447a1125fc245e"
| author | galaxyp |
|---|---|
| date | Wed, 08 Jul 2020 10:05:31 -0400 |
| parents | 728d459bafe8 |
| children | 8190f6083c0d |
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| 3:728d459bafe8 | 4:f5c632894818 |
|---|---|
| 1 <tool id="mz_to_sqlite" name="mz to sqlite" version="2.0.4"> | 1 <tool id="mz_to_sqlite" name="mz to sqlite" version="2.0.4+galaxy1"> |
| 2 <description>Extract mzIdentML and associated proteomics datasets into a SQLite DB</description> | 2 <description>Extract mzIdentML and associated proteomics datasets into a SQLite DB</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="2.0.4">mztosqlite</requirement> | 4 <requirement type="package" version="2.0.4">mztosqlite</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 <stdio> | 6 <stdio> |
| 7 <exit_code range="1:" level="fatal" description="Error Running mz_to_sqlite" /> | 7 <exit_code range="1:" level="fatal" description="Error Running mz_to_sqlite" /> |
| 8 </stdio> | 8 </stdio> |
| 9 <command> | 9 <command> |
| 10 <![CDATA[ | 10 <![CDATA[ |
| 11 mz_to_sqlite -Xms1g -Xmx6g | 11 mz_to_sqlite |
| 12 -numthreads "\${GALAXY_SLOTS:-4}" | 12 -numthreads "\${GALAXY_SLOTS:-4}" |
| 13 -dbname 'sqlite.db' | 13 -dbname 'sqlite.db' |
| 14 -mzid '$mzinput' | 14 -mzid '$mzinput' |
| 15 #if len($scanfiles) > 0: | 15 #if len($scanfiles) > 0: |
| 16 #set $files = " ".join(["'"+ a.strip() + "'" for a in str($scanfiles).split(',')]) | 16 #set $files = " ".join(["'"+ a.strip() + "'" for a in str($scanfiles).split(',')]) |