Medical-sig April 2020

medical-sig@lists.stg.fedorahosted.org

3 participants
4 discussions

Fedora Medical page renewal
by Jun Aruga 11 May '20

11 May '20

Hello, Fedora Medical SIG people. I am updating the SIG wiki page like this. https://fedoraproject.org/wiki/SIGs/Medical Some sections was moved here that is linked from the above SIG wiki page. https://fedoraproject.org/wiki/Medical/Memo Now I am migrating the issue data from Trac to Pagure fedora-medical issues page manually one by one from ticket id: 1. The number of total Trac tickets is 34. Old URL on Trac is redirected to the new page on the Pagure. https://fedorahosted.org/fedora-medical/ticket/1 => https://pagure.io/fedora-medical/issue/1 If you have opinions for the format for the new issue page: https://pagure.io/fedora-medical/issue/1 or something, please let me know. Cheers, Jun -- Jun | He - His - Him

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bowtie2
by Jun Aruga 08 May '20

08 May '20

Hi, I just share I am working on bowtie2 [1] packaging here [2] as a trial. Because I have seen Debian Med(ical) team is using the mailing list to share the package status, rather than a kind of issue page like Pagure. Right now it succeeded to build the bowtie2 RPM package on Fedora rawhide x86_64. As bowtie2 non-x86-64 packages needs simde [3] to build, I will do the packaging too. [1] https://github.com/BenLangmead/bowtie2 [2] https://github.com/junaruga/fedora-bowtie2 [3] https://github.com/nemequ/simde -- Jun | He - His - Him

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FYI: The simde movement
by Jun Aruga 21 Apr '20

21 Apr '20

Just for you information. Recently I was able to ship simde (SIMD Everywhere) RPM to Fedora [1], and am going to be shipped to EPEL too. It was the same timing with the Debian package's shipping.[2] The simde movement is very active in recent months. * simde-devel in Fedora * libsimde-dev in Debian It's a very powerful and portable software to make x86_64 only packages run on multiple CPU architectures. Here is a good example to adapt it. It's not hard to implement it. Yesterday there was a pull-request for minimap2 using SIMD. https://github.com/lh3/minimap2/pull/597 I would like to see SIMDe to be used more fo the SIMD implemented software. [1] https://src.fedoraproject.org/rpms/simde/ [2] https://wiki.debian.org/SIMDEverywhere -- Jun | He - His - Him

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RPM packages included in Medical and Biology category in Fedora?
by Jun Aruga 06 Apr '20

06 Apr '20

I created lists of RPM packages in Medical and Biology using Koschei's group tag feature. The medical-sig tag is for medical, healthcare, biology, computing biology, bioinformatics. The biology tag is for biology, computing biology, bioinformatics, genomics. Could you tell me any other packages you know, included in the lists [1] and [2]? * Koschei tip 1: On the list page, you can switch the list by [Show untracked] / [Hide untracked] toggle button. * Koschei tip 2: To enable tracking the package on Koschei, click a gear button on the "Scheduler parameters" on the page such as [3] if you have the permission. [1] and [2] are linked from Fedora Medical SIG page [4]. Thanks. [1] https://koschei.fedoraproject.org/groups/medical-sig?untracked=1 [2] https://koschei.fedoraproject.org/groups/biology?untracked=1 [3] https://koschei.fedoraproject.org/package/bowtie [4] https://fedoraproject.org/wiki/SIGs/Medical -- Jun | He - His - Him

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Medical-sig April 2020