inverse sample/metabolite in the input isocor file. #35
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Codecov Report
@@ Coverage Diff @@
## develop #35 +/- ##
========================================
Coverage 96.57% 96.57%
========================================
Files 12 12
Lines 292 292
Branches 3 3
========================================
Hits 282 282
Misses 10 10
Continue to review full report at Codecov.
|
ofilangi
deleted the
30-inversé-sample-et-metabolite-dans-le-tableau-résultat
branch
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>
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
fix #30