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msconvert fails for raw files where the identifier has no .raw extension

Status: Open.

#827 In galaxyproteomics/tools-galaxyp;

· bernt-matthias opened on Jun 5, 2026

MaxQuant new modification request

Status: Open.

#816 In galaxyproteomics/tools-galaxyp;

· rajeshmani327 opened on Mar 10, 2026

MSMS_preparation error

Status: Open.

#780 In galaxyproteomics/tools-galaxyp;

· aakendra11 opened on Nov 12, 2024

fragpipe fails templating config file

Status: Open.

#775 In galaxyproteomics/tools-galaxyp;

· mvdbeek opened on Sep 12, 2024

Alphapept

Tool needed

Status: Open.

#762 In galaxyproteomics/tools-galaxyp;

· bernt-matthias opened on Jun 10, 2024

Adding a new re-scoring tool on usegalaxy.eu

Status: Open.

#756 In galaxyproteomics/tools-galaxyp;

· sciordia opened on Apr 22, 2024

System.IndexOutOfRangeException: Index was outside the bounds of the array.

Status: Open.

#742 In galaxyproteomics/tools-galaxyp;

· VioletZZH opened on Feb 28, 2024

openms_msfraggeradapter error

Status: Open.

#740 In galaxyproteomics/tools-galaxyp;

· cat-bro opened on Feb 9, 2024

dbbuilder has unresolvable conda dependencies

Status: Open.

#739 In galaxyproteomics/tools-galaxyp;

· cat-bro opened on Feb 5, 2024

The 'reviewed' filter value can only be true or false

Status: Open.

#737 In galaxyproteomics/tools-galaxyp;

· mthang opened on Jan 31, 2024

Convert FeatureXML to peak table

Status: Open.

#735 In galaxyproteomics/tools-galaxyp;

· hechth opened on Nov 21, 2023

FASTA CLI runs successfully but shows 0bytes

Status: Open.

#732 In galaxyproteomics/tools-galaxyp;

· subinamehta opened on Oct 30, 2023