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phnmnl / container-galaxy-k8s-runtime

PhenoMeNal runtime for Galaxy running inside a container orchestrator
Apache License 2.0
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Get rid of disfunctional mtbls-downloader #133

Closed sneumann closed 6 years ago

sneumann commented 6 years ago

Hi, several people had no success downloading any data using https://publicdev.phenomenal-h2020.eu/?tool_id=mtbls-downloader.

If nobody can use it, should we drop it ? Is anything still using it ? Yours, Steffen

sneumann commented 6 years ago

Still some confusion whether this downloader works. I got the error:

2018-02-19T21:50:23.541635119Z Completed: 71492557K bytes transferred in 2446 seconds
2018-02-19T21:50:23.54173662Z  (239387K bits/sec), in 514 files, 13 directories.
2018-02-19T21:50:32.384663068Z   adding: i_Investigation.txt (deflated 61%)
2018-02-19T21:50:32.398456958Z   adding: s_ESB Tomato.txt (deflated 97%)
2018-02-19T21:50:32.42519588Z   adding: a_esb tomato_metabolite profiling_mass spectrometry-1.txt (deflated 97%)
2018-02-19T21:50:32.430712654Z   adding: a_esb tomato_metabolite profiling_mass spectrometry.txt (deflated 97%)
2018-02-19T21:50:32.652470475Z   adding: m_esb tomato_metabolite profiling_mass spectrometry-1_v2_maf.tsv (deflated 65%)
2018-02-19T21:50:32.662280127Z   adding: m_esb tomato_metabolite profiling_mass spectrometry_v2_maf.tsv (deflated 65%)
2018-02-19T22:43:43.317101696Z tar: /opt/galaxy_data/files/021/dataset_21468.dat: Cannot write: Read-only file system
2018-02-19T22:43:43.317135111Z tar: Error is not recoverable: exiting now
pcm32 commented 6 years ago

@sneumann so you think that this is an IPB or denbi firewall specific issue? or I'm confused? If this is the case, should we close it? Thanks!

sneumann commented 6 years ago

Just for the record here: the same downloader worked nicely on a fresh AWS instance, and we're currently checking both OpenStack firewall settings, 'till I have confirmation I'd leave it open.

sneumann commented 6 years ago

Hi, after modifying the Firewall (allowing incoming packets from UDP port 33001) by the OpenStack admins I can confirm that the downloader itself is functional.