Skip to content

Changes for next poseidon-eager release#77

Merged
TCLamnidis merged 7 commits intomainfrom
dev
May 6, 2025
Merged

Changes for next poseidon-eager release#77
TCLamnidis merged 7 commits intomainfrom
dev

Conversation

@TCLamnidis
Copy link
Member

@TCLamnidis TCLamnidis commented Apr 15, 2025

  • Add submitted md5 #76:
    • This PR adds pulling the submitted_md5 column to the SSFs generated by create_ssf_from_ena_project.py.
    • This is the first step to downloading uploaded BAMs when FastQs are not available.
    • Additionally, the BAM files will now be added to the recipe TSV when no FastQ is available.
  • Add gsa to ssf script #78: Added script to download SSF data from the GSA.
  • Bump version of Minotaur config and package config template: 0.4.0dev -> 0.5.0

@TCLamnidis TCLamnidis marked this pull request as draft April 15, 2025 16:15
TCLamnidis and others added 3 commits May 6, 2025 16:28
* first version of gsa_to_ssf script

* added some type hints, removed old add_column function

* made proposed changes to script. Added ssf data

* mf

* started janno

* added dating information

* [automated] Create package recipe from SSF files

* mf

* Revert "[automated] Create package recipe from SSF files"

This reverts commit 726e114.

* Revert "added dating information"

This reverts commit d5e6596.

* Revert "started janno"

This reverts commit 94cd549.

* remove 2025_Liu_ShanDong.ssf

* add submitted_md5 column

* WIP. refactor script. add TODOs

* add main. restructure code a bit. new excel to ssf funct

* update script.

* validate submitted_ftp and md5. Allow missing fastq_ftp. bump version

* indentation error

---------

Co-authored-by: kavlahkaff <de28oser@studserv.uni-leipzig.de>
Co-authored-by: delphis-bot <delphis-bot@poseidon-adna.org>
@TCLamnidis TCLamnidis marked this pull request as ready for review May 6, 2025 14:35
@TCLamnidis TCLamnidis changed the title Changes for next release Changes for next poseidon-eager release May 6, 2025
@TCLamnidis TCLamnidis merged commit eb7c223 into main May 6, 2025
1 check passed
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

1 participant