add sbt-release #16
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add sbt-release #16
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ofilangi
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Nov 5, 2021
* udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16)
ofilangi
added a commit
that referenced
this pull request
Nov 5, 2021
* udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation
ofilangi
added a commit
that referenced
this pull request
Nov 5, 2021
* udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config
ofilangi
added a commit
that referenced
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Nov 8, 2021
* udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools
ofilangi
added a commit
that referenced
this pull request
Mar 7, 2022
* udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools * Uplc tqd to isocor 24 (#26) * update Readme * add MassLynx parser / tests * replace strip with trim * increase coverage. manage bad line def inside array compound * fix coverage * fix coverage * add command/output object and tests * save notes * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor (#27) * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor * fix doc/name bin * downgrade profile galaxy version * fx test masslynx
ofilangi
added a commit
that referenced
this pull request
Apr 1, 2022
* udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools * Uplc tqd to isocor 24 (#26) * update Readme * add MassLynx parser / tests * replace strip with trim * increase coverage. manage bad line def inside array compound * fix coverage * fix coverage * add command/output object and tests * save notes * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor (#27) * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor * fix doc/name bin * downgrade profile galaxy version * fx test masslynx
ofilangi
added a commit
that referenced
this pull request
Apr 7, 2022
* Develop backup (#34) * udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools * Uplc tqd to isocor 24 (#26) * update Readme * add MassLynx parser / tests * replace strip with trim * increase coverage. manage bad line def inside array compound * fix coverage * fix coverage * add command/output object and tests * save notes * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor (#27) * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor * fix doc/name bin * downgrade profile galaxy version * fx test masslynx * inverse sample/metabolite in the input isocor file. (#35) * fix (#36) * fix * save * fix coverage * fix typo. increase test precision * increase limit coverage test to 97% ! * fix masslynx2isocor. 0.1.7 * add 0.1.7 jar
ofilangi
added a commit
that referenced
this pull request
May 3, 2022
* Develop backup (#34) * udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools * Uplc tqd to isocor 24 (#26) * update Readme * add MassLynx parser / tests * replace strip with trim * increase coverage. manage bad line def inside array compound * fix coverage * fix coverage * add command/output object and tests * save notes * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor (#27) * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor * fix doc/name bin * downgrade profile galaxy version * fx test masslynx * inverse sample/metabolite in the input isocor file. (#35) * fix (#36) * fix * save * fix coverage * fix typo. increase test precision * increase limit coverage test to 97% ! * fix masslynx2isocor. 0.1.7 * add 0.1.7 jar * update circleci config with planemo conf (#38) * update circleci config with planemo conf * install planemo * fix option planemo * remove docker exemple from planemo test * add jar * decrease coverage mandatory * test artefacts * up * coverage * update with lint * update * Isotopic mass configuration 39 (#40) * features: new method getNumberElementFromFormula to manage isotopic metabolites * save dev * update 0.1.8 * update galaxy tool masslynx2isocor * fix: repair/read formula from isocor Metabolites.dat. close #39 * update galaxy tool masslynx2isocor
ofilangi
added a commit
that referenced
this pull request
May 3, 2022
* Develop backup (#34) * udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools * Uplc tqd to isocor 24 (#26) * update Readme * add MassLynx parser / tests * replace strip with trim * increase coverage. manage bad line def inside array compound * fix coverage * fix coverage * add command/output object and tests * save notes * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor (#27) * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor * fix doc/name bin * downgrade profile galaxy version * fx test masslynx * inverse sample/metabolite in the input isocor file. (#35) * fix (#36) * fix * save * fix coverage * fix typo. increase test precision * increase limit coverage test to 97% ! * fix masslynx2isocor. 0.1.7 * add 0.1.7 jar * update circleci config with planemo conf (#38) * update circleci config with planemo conf * install planemo * fix option planemo * remove docker exemple from planemo test * add jar * decrease coverage mandatory * test artefacts * up * coverage * update with lint * update * Isotopic mass configuration 39 (#40) * features: new method getNumberElementFromFormula to manage isotopic metabolites * save dev * update 0.1.8 * update galaxy tool masslynx2isocor * fix: repair/read formula from isocor Metabolites.dat. close #39 * update galaxy tool masslynx2isocor * fix label masslynx2Isocor (#43) * remove readme empty
ofilangi
added a commit
that referenced
this pull request
Jul 21, 2022
* Develop backup (#34) * udpate Readme and plugin gpg https://github.com/jodersky/sbt-gpg * downgrade gpg to 0.2.1. 0.2.2 not available ! * remove tagret directory fro repo * remove tagret directory fro repo * update Readme * fix jar publication * covered code for commands * update readme with badge * remove script * change galaxy recipe directory * remove temp file * minor fix for resume * add planemo test * add planemo test * add planemo test * add planemo test * add planemo test * planemo test only master/main/develop * lint planemo + conda test version * lint planemo + conda test version * lint planemo + conda test version * update fix meta.yml * remove conda recipe * clean repo * add sbt-release (#16) * Sbt release (#18) * add sbt-release * valid pom generation * Dockerfile (#20) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * Dockerfile (#22) * target directory for assembly * add dockerized task * add dockerfile * update gitignore * use directory docker * update docker management * fix outputdir assembly * update docker config * remove debug config * remove coverage enable * fix dockerfile implementation to run process inside galaxy tools * Uplc tqd to isocor 24 (#26) * update Readme * add MassLynx parser / tests * replace strip with trim * increase coverage. manage bad line def inside array compound * fix coverage * fix coverage * add command/output object and tests * save notes * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor (#27) * add galaxy config tools - gcms2isocor openlabcds2csv masslynx2isocor * fix doc/name bin * downgrade profile galaxy version * fx test masslynx * inverse sample/metabolite in the input isocor file. (#35) * fix (#36) * fix * save * fix coverage * fix typo. increase test precision * increase limit coverage test to 97% ! * fix masslynx2isocor. 0.1.7 * add 0.1.7 jar * update circleci config with planemo conf (#38) * update circleci config with planemo conf * install planemo * fix option planemo * remove docker exemple from planemo test * add jar * decrease coverage mandatory * test artefacts * up * coverage * update with lint * update * Isotopic mass configuration 39 (#40) * features: new method getNumberElementFromFormula to manage isotopic metabolites * save dev * update 0.1.8 * update galaxy tool masslynx2isocor * fix: repair/read formula from isocor Metabolites.dat. close #39 * update galaxy tool masslynx2isocor * fix label masslynx2Isocor (#43) * remove readme empty * parser base for Xcalibur XLS (#45) * parser base for Xcalibur XLS * fix test * add assert to test Xcalibur getResults * finalize P=Output Xcalibur format * upgrade sbt to 1.6.2 * fix text/coverage Co-authored-by: Olivier Filangi <you@example.com> * increase coverage allowed. fix test xcalibur (#47) * management more generic of Quantify Compound Summary Report MassLynx (#48) * management more generic of Quantify Compound Summary Report MassLynx * add resource test * fix codacy issues * rename Txt Quantify Compound Summary Report Parser (#49) * rename Txt Quantify Compound Summary Report Parser * add xml parser of quantitative Data Processing Mass Lynx format * Format sniffer (#50) * implement sniffer xcalibur * implement sniffer gcms * implement sniffer openlabcds * implement sniffer masslynx Co-authored-by: Olivier Filangi <you@example.com> * refactor format name/package (#51) * refactor format name/package * refactor MassLynx XML format * GCMS HeaderField Implementation * save implement OpenLab HeaderField * fix test OpenLab * adapt Isocor Format object * factorize token transformation to Enum Type HeaderField * clean package organization * add test conversion * refactor test Conversion format * save work * add header information with OpenlabCDS txt format * implement test stream xlsP2M2 * fix coverage * fix coverage * fix coverage * save work * save work * merge GenericP2M2 object * save format date management * fix coverage * fix coverage * add print * fix test CESTversus UTC DateTime Co-authored-by: Olivier Filangi <you@example.com> * fix docker container creation * update version name. xml lib compatibility with Play Framework * fix xml dependancies * fix assembly * fix codacy warn Co-authored-by: Olivier Filangi <you@example.com>
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