Ecosyste.ms: Issues

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GitHub / ebi-ait/geo_to_hca issues and pull requests

#46 - Bump pygments from 2.13.0 to 2.15.0

Pull Request - State: open - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#45 - Bump requests from 2.28.1 to 2.31.0

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#44 - Fix hca_bionetworks property name

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

#43 - dcp-908 error messages, cleanup, testing

Pull Request - State: open - Opened by amnonkhen over 1 year ago - 1 comment

#42 - handle long requests with POST

Pull Request - State: open - Opened by ESapenaVentura over 1 year ago

#41 - Sanitise Requirements, match ingest-client

Pull Request - State: closed - Opened by MightyAx almost 2 years ago

#40 - Bump numpy from 1.19.5 to 1.22.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 1 comment
Labels: dependencies

#39 - dcp-855 error handling when accession is not found

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

#38 - dcp-805 dcp-827 sra import bug

Pull Request - State: closed - Opened by amnonkhen about 2 years ago - 1 comment

#37 - geo_to_hca: Updated hca template to reflect schema updates (treatment protocol)

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

#36 - Fixes for dcp 707 and some refactoring

Pull Request - State: closed - Opened by jacobwindsor over 2 years ago - 1 comment

#35 - Allow usage of SRP accessions directly

Pull Request - State: closed - Opened by jacobwindsor over 2 years ago

#34 - Show error message if srp is nonexistent

Pull Request - State: closed - Opened by jacobwindsor over 2 years ago

#33 - Dcp-650: update spreadsheet template

Pull Request - State: closed - Opened by yusra-haider over 2 years ago

#32 - dcp-142 geo to hca - pypi package

Pull Request - State: closed - Opened by amnonkhen over 2 years ago

#31 - Fix request to get fastq info from ENA

Pull Request - State: closed - Opened by aaclan-ebi almost 3 years ago - 2 comments

#30 - Add option to retrieve metadata in the absence of an SRA study accession

Issue - State: closed - Opened by ami-day almost 3 years ago - 1 comment
Labels: enhancement

#29 - Library preparation incorrect when converting GSE130708

Issue - State: open - Opened by mshadbolt over 3 years ago
Labels: Submission

#28 - Added option to provide ERP study accession

Pull Request - State: closed - Opened by ami-day over 3 years ago

#27 - Bug when showing paper titles

Issue - State: open - Opened by ESapenaVentura over 3 years ago
Labels: bug

#26 - Refactoring code: geo to hca

Pull Request - State: closed - Opened by ami-day over 3 years ago - 1 comment

#25 - Improve speed

Pull Request - State: closed - Opened by ami-day over 3 years ago - 2 comments

#24 - Updated script to include an option to skip searching for fastq files…

Pull Request - State: closed - Opened by ami-day over 3 years ago - 1 comment
Labels: enhancement

#23 - Dissociation protocol tab is missing from output spreadsheet

Issue - State: closed - Opened by ami-day almost 4 years ago - 1 comment
Labels: bug, enhancement

#22 - Fixed requirements/deleted some unused libraries

Pull Request - State: closed - Opened by ESapenaVentura almost 4 years ago

#21 - issue installing sra requirements with pip and pip3

Issue - State: closed - Opened by rachadele almost 4 years ago - 2 comments

#20 - Ensure all modules are in the template spreadsheet

Issue - State: closed - Opened by mshadbolt about 4 years ago - 2 comments

#19 - [FEATURE] Add functionality to create one combined spreadsheet rather than separate ones

Issue - State: closed - Opened by mshadbolt about 4 years ago - 1 comment
Labels: enhancement

#18 - remove sra-tools as a requirement

Pull Request - State: closed - Opened by mshadbolt about 4 years ago - 1 comment

#17 - Add function to detect correct accession to use in a Superseries

Issue - State: closed - Opened by ami-day over 4 years ago - 1 comment

#16 - Add 'GSM" sample ids to 'specimen from organism' and 'cell suspension' tabs

Issue - State: closed - Opened by ami-day over 4 years ago - 1 comment

#14 - Sort spreadsheet tabs by the same accession ids

Issue - State: closed - Opened by ami-day over 4 years ago - 1 comment

#13 - [FEATURE] Add INSDC project and study accessions to Project tab

Issue - State: closed - Opened by mshadbolt over 4 years ago - 2 comments

#12 - [BUG] Write the correct lane_index and bundling

Issue - State: closed - Opened by ESapenaVentura over 4 years ago - 1 comment
Labels: bug

#11 - [FEATURE] format and input authors for the publication tab

Issue - State: closed - Opened by mshadbolt over 4 years ago - 9 comments

#9 - Fixed Fastq filename Issue and some other errors. Fixes #6

Pull Request - State: closed - Opened by ESapenaVentura over 4 years ago

#8 - Linted the code for apps/geo_to_hca.py

Pull Request - State: closed - Opened by ESapenaVentura over 4 years ago
Labels: enhancement

#7 - Link protocol ids to cell suspension ids in geo_to_hca.py script

Issue - State: closed - Opened by ami-day over 4 years ago
Labels: enhancement

#6 - Address missing fastq file names in apps/geo_to_hca.py script

Issue - State: closed - Opened by ami-day over 4 years ago - 1 comment
Labels: enhancement

#5 - Lint repository code to abide to PEP 8

Issue - State: open - Opened by ESapenaVentura over 4 years ago
Labels: Submission, non functional, User Story, FAIRification, UX design

#4 - Add parser to apps/geo_to_hca.py script

Issue - State: closed - Opened by ESapenaVentura over 4 years ago - 4 comments
Labels: enhancement

#3 - Update repository documentation

Issue - State: closed - Opened by ESapenaVentura over 4 years ago - 3 comments
Labels: documentation

#2 - Fix issue with spreadsheet names not showing correctly

Issue - State: closed - Opened by ESapenaVentura over 4 years ago - 3 comments
Labels: bug

#1 - Changes to code in App and added user-friendly template.

Pull Request - State: closed - Opened by ESapenaVentura over 4 years ago - 1 comment
Labels: enhancement