[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #14 from Dave Love --- For what it's worth, http://www.ccb.jhu.edu/software/tophat/index.shtml now says tophat is "largely superseded". There's a quick go at hisat2, the replacement, in the above copr; it hasn't been tested, though. -- You are receiving this mail because: You are always notified about changes to this product and component ___ package-review mailing list package-review@lists.fedoraproject.org http://lists.fedoraproject.org/admin/lists/package-review@lists.fedoraproject.org
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
https://bugzilla.redhat.com/show_bug.cgi?id=708402 Dave Love changed: What|Removed |Added Status|CLOSED |NEW CC||d.l...@liverpool.ac.uk Resolution|NOTABUG |--- Keywords||Reopened --- Comment #12 from Dave Love --- seqan is packaged. There's a tophat build currently under https://copr.fedoraproject.org/coprs/loveshack/livhpc/build/83875/. It requires an unbundled tinythread++ from the same copr, which I could submit if it helps this go through. Unfortunately it can't currently go in EPEL6, due to the boost version required, but it's in the above copr using the boost scl if anyone wants it. -- You are receiving this mail because: You are always notified about changes to this product and component ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #13 from Dave Love --- (In reply to Dave Love from comment #12) > Unfortunately it can't currently go in EPEL6, > due to the boost version required, but it's in the above copr using the > boost scl if anyone wants it. Oops, I forgot that seqan is missing from EPEL and won't build in copr, probably due to memory usage. The srpm does work if you can build your own seqan. -- You are receiving this mail because: You are always notified about changes to this product and component ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
https://bugzilla.redhat.com/show_bug.cgi?id=708402 Christopher Meng changed: What|Removed |Added Depends On||1105730 Referenced Bugs: https://bugzilla.redhat.com/show_bug.cgi?id=1105730 [Bug 1105730] Review Request: seqan-devel - Open source C++ library of efficient algorithms and data structures -- You are receiving this mail because: You are always notified about changes to this product and component ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
https://bugzilla.redhat.com/show_bug.cgi?id=708402 Bug 708402 depends on bug 1105730, which changed state. Bug 1105730 Summary: Review Request: seqan - Open source C++ library of efficient algorithms and data structures https://bugzilla.redhat.com/show_bug.cgi?id=1105730 What|Removed |Added Status|ON_QA |CLOSED Resolution|--- |ERRATA -- You are receiving this mail because: You are always notified about changes to this product and component ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 Alex Lancaster changed: What|Removed |Added CC||al...@users.sourceforge.net Alias||tophat -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #6 from Adam Huffman 2012-01-03 08:20:06 EST --- Update to 1.3.3: http://verdurin.fedorapeople.org/reviews/tophat/tophat.spec http://verdurin.fedorapeople.org/reviews/tophat/tophat-1.3.3-1.fc16.src.rpm -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #7 from Volker Fröhlich 2012-01-07 23:19:52 EST --- SeqAn must still be un-bundled from tophat to finish the review. -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #8 from Adam Huffman 2012-01-08 06:55:50 EST --- Yes, I'm looking at SeqAn again now. -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #9 from Adam Huffman 2012-01-30 17:13:10 EST --- Still working on SeqAn. In the meantime, updated to 1.4.0: http://verdurin.fedorapeople.org/reviews/tophat/tophat.spec http://verdurin.fedorapeople.org/reviews/tophat/tophat-1.4.0-1.fc16.src.rpm -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 Volker Fröhlich changed: What|Removed |Added CC||volke...@gmx.at --- Comment #1 from Volker Fröhlich 2011-05-28 10:01:05 EDT --- This package bundles an old version of SeqAn (http://www.seqan.de/). Please separately package this library and delete it in the prep section before building then. -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #2 from Adam Huffman 2011-05-28 19:45:55 EDT --- Ugh. I've made a start on SeqAn and that bundles an old copy of samtools... Anyway, I'll make a separate review request for that. -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #3 from Adam Huffman 2011-06-06 07:50:24 EDT --- 1.3.0 is now out. It bundles a newer (though still out of date) version of SeqAn. I'll try contacting the upstream authors about this, though they haven't responded to any of my other queries so far. http://verdurin.fedorapeople.org/reviews/tophat/tophat.spec http://verdurin.fedorapeople.org/reviews/tophat/tophat-1.3.0-1.fc16.src.rpm -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 Adam Huffman changed: What|Removed |Added Blocks||505154(FE-SCITECH) -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #4 from Adam Huffman 2011-06-28 03:00:00 EDT --- New bugfix release: http://verdurin.fedorapeople.org/reviews/tophat/tophat.spec http://verdurin.fedorapeople.org/reviews/tophat/tophat-1.3.1-1.fc14.src.rpm I'll post my SeqAn request shortly. -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #5 from Adam Huffman 2011-06-28 17:40:35 EDT --- SeqAn request is at https://bugzilla.redhat.com/show_bug.cgi?id=717473 -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
[Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Please do not reply directly to this email. All additional comments should be made in the comments box of this bug. https://bugzilla.redhat.com/show_bug.cgi?id=708402 Adam Huffman changed: What|Removed |Added Depends on||717473 -- Configure bugmail: https://bugzilla.redhat.com/userprefs.cgi?tab=email --- You are receiving this mail because: --- You are on the CC list for the bug. ___ package-review mailing list package-review@lists.fedoraproject.org https://admin.fedoraproject.org/mailman/listinfo/package-review
needinfo canceled: [Bug 708402] Review Request: tophat - A spliced read mapper for RNA-Seq
Product: Fedora Version: rawhide Component: Package Review Package Review has canceled Package Review 's request for Adam Huffman 's needinfo: Bug 708402: Review Request: tophat - A spliced read mapper for RNA-Seq https://bugzilla.redhat.com/show_bug.cgi?id=708402 --- Comment #16 from Package Review --- This is an automatic action taken by review-stats script. The ticket submitter failed to clear the NEEDINFO flag in a month. As per https://fedoraproject.org/wiki/Policy_for_stalled_package_reviews we consider this ticket as DEADREVIEW and proceed to close it. ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
