Ricardo Wurmus <[email protected]> skribis: > Ludovic Courtès <[email protected]> writes:
[...] >> gnu/packages/bioinformatics.scm:2627:5: sra-tools-2.4.5-5: all the source >> URIs are unreachable: >> gnu/packages/bioinformatics.scm:2627:5: sra-tools-2.4.5-5: URI >> https://github.com/ncbi/sra-tools/archive/2.4.5-5.tar.gz not reachable: 404 >> ("Not Found") > > The tarball has been removed. I’ll update it to the latest version. > >> gnu/packages/bioinformatics.scm:2419:5: ncbi-vdb-2.4.5-5: all the source >> URIs are unreachable: >> gnu/packages/bioinformatics.scm:2419:5: ncbi-vdb-2.4.5-5: URI >> https://github.com/ncbi/ncbi-vdb /archive/2.4.5-5.tar.gz not >> reachable: 404 ("Not Found") > > Same here. The tarball was removed. There are new versions out > already, so I’ll take the opportunity to update it. Aren’t these /archive URLs providing tarballs generated on the fly from a Git tag? Looking at <https://github.com/ncbi/ncbi-vdb/releases>, it seems that this particular tag has been removed. > From 01d547a6eedfb28d19551042f581e588dcc56fb5 Mon Sep 17 00:00:00 2001 > From: Ricardo Wurmus <[email protected]> > Date: Fri, 20 Nov 2015 11:14:00 +0100 > Subject: [PATCH 1/2] gnu: Add smithlab-cpp. > > * gnu/packages/bioinformatics.scm (smithlab-cpp): New variable. LGTM. > From 534d7b73cda92b982f1338b1c9db420767d78066 Mon Sep 17 00:00:00 2001 > From: Ricardo Wurmus <[email protected]> > Date: Fri, 20 Nov 2015 11:14:48 +0100 > Subject: [PATCH 2/2] gnu: preseq: Update to 2.0. > > * gnu/packages/bioinformatics.scm (preseq): Update to 2.0. > [source]: Add file-name field, remove patches. > [arguments]: Remove unused build phases, add make flags. > [inputs]: Add smithlab-cpp. > * gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch: Remove file. > * gnu/packages/patches/preseq-1.0.2-install-to-PREFIX.patch: Remove > file. > * gnu-system.am (dist_patch_DATA): Remove them. LGTM. >> gnu/packages/java.scm:139:12: ant-1.9.4: all the source URIs are unreachable: >> gnu/packages/java.scm:139:12: ant-1.9.4: URI >> https://www.apache.org/dist/ant/source/apache-ant-1.9.4-src.tar.gz not >> reachable: 404 ("Not Found") > > I don’t know why people do this but here again the tarballs have been > removed and replaced with those for version 1.9.6. Here’s another patch > to update our ant package: mirror://apache includes http://archive.apache.org/dist/, which is where old archives go. Could you use that one instead? > From 212e56286c946b7a34d03819c20faa473cc42a9d Mon Sep 17 00:00:00 2001 > From: Ricardo Wurmus <[email protected]> > Date: Fri, 20 Nov 2015 11:23:18 +0100 > Subject: [PATCH] gnu: ant: Update to 1.9.6. > > * gnu/packages/java.scm (ant): Update to 1.9.6. Upgrading is fine too. Thank you! Ludo’.
