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Why was the website so slow for so long?

The cause of the slowdown was a change to the ZFS dataset. In conjunction with the database server, very little caching was being done. This combination resulted in increased disk I/O as the system churned through the database. Details in the blog post which outlines the various things which changed. Many graphs.

non port: biology/viennarna/Makefile

Number of commits found: 6

Mon, 6 Jan 2020
[ 04:17 yuri ] Original commit   Revision:522200
522200 biology/viennarna/Makefile
522200 biology/viennarna/distinfo
522200 biology/viennarna/pkg-plist
biology/viennarna: Update 2.4.13 -> 2.4.14

Reported by:	repology
Mon, 4 Nov 2019
[ 21:08 zeising ] Original commit   Revision:516742
516742 benchmarks/clpeak/Makefile
516742 benchmarks/glmark2/Makefile
516742 biology/garlic/Makefile
516742 biology/molden/Makefile
516742 biology/ncbi-cxx-toolkit/Makefile
516742 biology/phylip/Makefile
516742 biology/protomol/Makefile
516742 biology/seaview/Makefile
516742 biology/seqtools/Makefile
516742 biology/ugene/Makefile

(Only the first 10 of 11 ports in this commit are shown above. View all ports for this commit)
Add USES=xorg USES=gl, ports categories b

Add USES=xorg, USES=gl and in a few cases USES=gnome to ports in categories
starting with 'b'.
Fri, 25 Oct 2019
[ 23:41 tcberner ] Original commit   Revision:515671
515671 astro/gnuastro/Makefile
515671 astro/siril/Makefile
515671 audio/p5-Audio/Makefile
515671 audio/snd/Makefile
515671 benchmarks/flowgrind/Makefile
515671 biology/bcftools/Makefile
515671 biology/gemma/Makefile
515671 biology/viennarna/Makefile
515671 comms/gnuradio/Makefile
515671 editors/calligra/Makefile

(Only the first 10 of 64 ports in this commit are shown above. View all ports for this commit)
math/gsl: update to 2.6

- math/p5-Math-GSL does not seem to have any upstream activity to make it work
with this version -> mark it broken
  - this also breaks the two consumers of this port

- biology/gemma: has a conflict with cblas, and is makred broken.

PR:		241363
Exp-run by:	antoine
Fri, 26 Jul 2019
[ 20:46 gerald ] Original commit   Revision:507372
507372 Mk/
507372 accessibility/atkmm/Makefile
507372 accessibility/kmag/Makefile
507372 accessibility/kmousetool/Makefile
507372 accessibility/kmouth/Makefile
507372 accessibility/libqaccessibilityclient/Makefile
507372 accessibility/qt5-speech/Makefile
507372 archivers/R-cran-zip/Makefile
507372 archivers/ark/Makefile
507372 archivers/brotli/Makefile

(Only the first 10 of 3853 ports in this commit are shown above. View all ports for this commit)
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/ which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/ which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330
Mon, 24 Jun 2019
[ 19:30 yuri ] Original commit   Revision:505049
505049 biology/viennarna/Makefile
505049 biology/viennarna/files/
505049 biology/viennarna/files/
505049 biology/viennarna/files/patch-configure
505049 biology/viennarna/files/
505049 biology/viennarna/files/
biology/viennarna: Make it less/not prone to failures due to hardcoded C++
library name

configure and provided in tarballs have -lstdc++ hard-coded in them.
The previous version of the port patches these to be -lc++, which still might
fail on gcc systems, depending on which C++ library is used.

This change adds USES=autoreconf which makes it to regenerate configure and and hopefully have the proper C++ library in these files.

GNU libtool links with the C compiler, not with the C++ compiler, in this
project. This is what I think triggers link failures due to a wrong C++
library getting into the link lines. GNU libtool likely chooses C compiler
because this project has its 'main' functions in .c files,
but also includes C++ object modules. This likely causes GNU tools confusion and
it uses the C compiler to link and fails due to wrong C++ libraries added there.
[ 09:29 yuri ] Original commit   Revision:505017
505017 biology/Makefile
505017 biology/viennarna
505017 biology/viennarna/Makefile
505017 biology/viennarna/distinfo
505017 biology/viennarna/files
505017 biology/viennarna/files/
505017 biology/viennarna/files/patch-configure
505017 biology/viennarna/files/
505017 biology/viennarna/files/
505017 biology/viennarna/pkg-descr

(Only the first 10 of 11 ports in this commit are shown above. View all ports for this commit)
New port: biology/viennarna: Alignment tools for the structural analysis of RNA

Number of commits found: 6

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