Metabolights Downloader

A Metabolights study downloader for Galaxy, part of the Workflow4Metabolomics project, and developed during the PhenoMeNal project.

For more information, see the galaxy tool page, help section, available inside mtbls-dwnld_config.xml.

Requirements

• Python 3.8
• isatools 0.10.3
• unzip program.
• wget program.
• ascp (Aspera secure copy) program, version 3.7.4 or greater, which you can download here.

Updates

4.1.4

• Use MTBLS29 instead of MTBLS30, which has been removed from public repository, for testing.
• Make planemo tests pass on Travis-CI.
• Run several times ascp downloads for tests on Travis-CI, due to connection issues.

2.0.4

• Test presence of downloader program.
• Correct running of wget.

2.0.3

• Allow to choose the downloading method (wget or aspera).
• Ask to specify is the study to download is public or private.
• Allow to download all assays at once and convert them to W4M format.
• Allow to download mzMl and mzData files as collections.

1.3.0

• Allow to choose the assay to extract and convert to W4M format.