bigbio/sdrf-pipelines issues and pull requests

#183 - ignore case in original extension

Pull Request - State: closed - Opened by daichengxin 29 days ago - 3 comments
Labels: Review effort [1-5]: 2

#182 - Fix column order validation

Pull Request - State: closed - Opened by levitsky about 2 months ago - 3 comments
Labels: Bug fix, Review effort [1-5]: 2

#181 - Version increased for release

Pull Request - State: closed - Opened by ypriverol about 2 months ago

#180 - Add permissions for black

Pull Request - State: closed - Opened by levitsky about 2 months ago - 4 comments
Labels: Review effort [1-5]: 1, configuration changes

#179 - Add setuptools dependency

Pull Request - State: closed - Opened by levitsky about 2 months ago - 4 comments
Labels: dependencies, Review effort [1-5]: 1

#178 - Fix ValueError on enzyme validation

Pull Request - State: closed - Opened by levitsky about 2 months ago - 3 comments
Labels: Bug fix, Review effort [1-5]: 2

#177 - The column technology typecannot be before the assay name -- ERROR

Issue - State: closed - Opened by levitsky about 2 months ago - 2 comments

#176 - Validation error for enzyme information encoded by fragpipe

Issue - State: closed - Opened by levitsky about 2 months ago - 1 comment

#175 - ImprtError on Python 3.12 due to missing pkg_resouces

Issue - State: closed - Opened by levitsky about 2 months ago

#173 - Allow missing/NA-filled columns for sdrf2openms conversion

Issue - State: open - Opened by jpfeuffer 2 months ago
Labels: enhancement

#172 - Validation fails with some repeated columns

Issue - State: open - Opened by ypriverol 4 months ago - 1 comment
Labels: bug

#171 - skip ols internet check, use instead local parquet files

Pull Request - State: closed - Opened by ypriverol 4 months ago - 1 comment

#170 - skip OLS query option, only check locally

Issue - State: closed - Opened by ypriverol 4 months ago
Labels: documentation, enhancement

#169 - Big PR with multiple validations - [DO NOT MERGE YET]

Pull Request - State: closed - Opened by ypriverol 4 months ago - 2 comments

#168 - OLS refactoring.

Pull Request - State: closed - Opened by ypriverol 4 months ago - 1 comment

#167 - Report error with validate SDRF if factor value column doesn't correspond to characteristics column

Issue - State: closed - Opened by kai-lawsonmcdowall 6 months ago - 8 comments

#166 - Better error message with SDRF to OpenMS

Issue - State: closed - Opened by ypriverol 8 months ago

#165 - Update openms.py

Pull Request - State: closed - Opened by ypriverol 8 months ago - 1 comment

#164 - Error When converting to OpenMS enzymes

Issue - State: closed - Opened by ypriverol 8 months ago
Labels: bug

#163 - small changes realted with OLS.

Pull Request - State: closed - Opened by ypriverol 9 months ago - 1 comment

#162 - Major changes and bug fixing

Pull Request - State: closed - Opened by ypriverol 9 months ago - 1 comment

#161 - Searching for a term found as substring in OLS.

Issue - State: closed - Opened by ypriverol 9 months ago
Labels: enhancement, high-priority

#160 - OLS search terms pagination error

Issue - State: closed - Opened by ypriverol 9 months ago
Labels: bug, high-priority

#159 - Proposal for refactoring & higher maintainability

Issue - State: open - Opened by di-hardt 10 months ago - 6 comments
Labels: documentation, enhancement, question

#158 - Free text validation

Issue - State: open - Opened by TineClaeys 10 months ago - 1 comment

#157 - Decide the main developer behind version 0.0.25 in sdrf-pipelines

Issue - State: closed - Opened by ypriverol 11 months ago - 1 comment
Labels: high-priority

#156 - sdrf pipelines version 0.0.25

Issue - State: open - Opened by ypriverol 11 months ago
Labels: high-priority

#155 - Validate file duplications if not multiplexing is available

Issue - State: open - Opened by ypriverol 12 months ago
Labels: bug, high-priority

#154 - Validator option for the different flavors

Issue - State: open - Opened by jpfeuffer 12 months ago

#153 - The empty cells validation is not good

Issue - State: open - Opened by ypriverol 12 months ago

#152 - Problems understanding TMT label in sdrf file

Issue - State: open - Opened by MetteBoge 12 months ago

#151 - Moving to OLS4 is needed

Issue - State: closed - Opened by ypriverol about 1 year ago

#150 - PLEASE DO NOT MERGE Fix minor issues for the terms validation

Pull Request - State: closed - Opened by ypriverol about 1 year ago - 1 comment

#149 - Refactor testing and arbitrary extension handling

Pull Request - State: closed - Opened by jspaezp about 1 year ago - 2 comments

#148 - Conversion bruker data

Pull Request - State: closed - Opened by ypriverol about 1 year ago - 13 comments

#147 - OpenMS converter does not handle "cleavage agent" = "not applicable" correctly

Issue - State: closed - Opened by davidecarlson about 1 year ago - 20 comments

#146 - Fixed some errors introduced before in #PR 44

Pull Request - State: closed - Opened by ypriverol over 1 year ago

#145 - [Pitch] Partial keep raw in OpenMS

Issue - State: closed - Opened by jspaezp over 1 year ago - 14 comments

#144 - Check to see if key is present and values are set

Pull Request - State: closed - Opened by lazear over 1 year ago - 3 comments

#143 - Fix if-else branch in column name validation

Pull Request - State: closed - Opened by lazear over 1 year ago

#142 - Flexible key-value pair location

Pull Request - State: closed - Opened by WangHong007 over 1 year ago

#141 - Why are these elements private?

Issue - State: closed - Opened by fabianegli over 1 year ago - 1 comment

#140 - wiff supporting and default label modifications

Pull Request - State: closed - Opened by daichengxin about 2 years ago

#139 - Erroneous TMT label extraction logic

Issue - State: open - Opened by fabianegli about 2 years ago

#138 - Added a few more parameters for generating the maxquant parameter file

Pull Request - State: closed - Opened by veitveit about 2 years ago - 8 comments