notbugAs an Amazon Associate I earn from qualifying purchases.
Want a good read? Try FreeBSD Mastery: Jails (IT Mastery Book 15)
Want a good monitor light? See my photosAll times are UTC
Ukraine
This referral link gives you 10% off a Fastmail.com account and gives me a discount on my Fastmail account.

Get notified when packages are built

A new feature has been added. FreshPorts already tracks package built by the FreeBSD project. This information is displayed on each port page. You can now get an email when FreshPorts notices a new package is available for something on one of your watch lists. However, you must opt into that. Click on Report Subscriptions on the right, and New Package Notification box, and click on Update.

FInally, under Watch Lists, click on ABI Package Subscriptions to select your ABI (e.g. FreeBSD:14:amd64) & package set (latest/quarterly) combinatio for a given watch list. This is what FreshPorts will look for.

non port: biology/viennarna/Makefile

Number of commits found: 26

Saturday, 2 Mar 2024
20:35 Nuno Teixeira (eduardo) search for other commits by this committer
biology/viennarna: Move man pages to share/man

Approved by:	portmgr (blanket)
commit hash: 5ebea8ee63694705561188cea0516d42ee214df9 commit hash: 5ebea8ee63694705561188cea0516d42ee214df9 commit hash: 5ebea8ee63694705561188cea0516d42ee214df9 commit hash: 5ebea8ee63694705561188cea0516d42ee214df9 5ebea8e
Monday, 1 Jan 2024
11:49 Thierry Thomas (thierry) search for other commits by this committer
*/*: chase the upgrade of BLAS / LAPACK to 3.12.0

PR:		275860
commit hash: f2489ab0c721f5ec60a9f8074e904cfbe5d21dfd commit hash: f2489ab0c721f5ec60a9f8074e904cfbe5d21dfd commit hash: f2489ab0c721f5ec60a9f8074e904cfbe5d21dfd commit hash: f2489ab0c721f5ec60a9f8074e904cfbe5d21dfd f2489ab
Friday, 3 Nov 2023
22:02 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: update 2.6.3 → 2.6.4
commit hash: 3a75bcff89efbcf7a3ddfc734543b7645ae3fcf6 commit hash: 3a75bcff89efbcf7a3ddfc734543b7645ae3fcf6 commit hash: 3a75bcff89efbcf7a3ddfc734543b7645ae3fcf6 commit hash: 3a75bcff89efbcf7a3ddfc734543b7645ae3fcf6 3a75bcf
Friday, 18 Aug 2023
06:57 Muhammad Moinur Rahman (bofh) search for other commits by this committer
biology/viennarna: Mark BROKEN on 14

Fails to compile with:
error: no member named 'bind2nd' in namespace 'std'

Approved by:	portmgr (blanket)
Sponsored by:	The FreeBSD Foundation
commit hash: 4b87c88e29a4bc388f2abb490e14c9497ee13226 commit hash: 4b87c88e29a4bc388f2abb490e14c9497ee13226 commit hash: 4b87c88e29a4bc388f2abb490e14c9497ee13226 commit hash: 4b87c88e29a4bc388f2abb490e14c9497ee13226 4b87c88
Saturday, 22 Jul 2023
08:55 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: Update 2.6.2 → 2.6.3
commit hash: c8adede0fca784c2d1ca3affc161b4c6a8af8514 commit hash: c8adede0fca784c2d1ca3affc161b4c6a8af8514 commit hash: c8adede0fca784c2d1ca3affc161b4c6a8af8514 commit hash: c8adede0fca784c2d1ca3affc161b4c6a8af8514 c8adede
Sunday, 16 Jul 2023
21:38 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: Remove unnecessary library from .pc file; Correct pkg-descr
commit hash: 3e4f91e805a3663672f9efdae1d4bb5b44d0c81a commit hash: 3e4f91e805a3663672f9efdae1d4bb5b44d0c81a commit hash: 3e4f91e805a3663672f9efdae1d4bb5b44d0c81a commit hash: 3e4f91e805a3663672f9efdae1d4bb5b44d0c81a 3e4f91e
20:50 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: Update 2.5.1 → 2.6.2
commit hash: bb900f7c9a847717df9ed78f5e8ad47261a2921a commit hash: bb900f7c9a847717df9ed78f5e8ad47261a2921a commit hash: bb900f7c9a847717df9ed78f5e8ad47261a2921a commit hash: bb900f7c9a847717df9ed78f5e8ad47261a2921a bb900f7
Wednesday, 7 Sep 2022
21:10 Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (tcberner)
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 b7f0544
Sunday, 31 Jul 2022
08:12 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: Update 2.5.0 -> 2.5.1

Also add test target.
commit hash: c7b296877cf88cf00873673bcdcb5109ab9f3f93 commit hash: c7b296877cf88cf00873673bcdcb5109ab9f3f93 commit hash: c7b296877cf88cf00873673bcdcb5109ab9f3f93 commit hash: c7b296877cf88cf00873673bcdcb5109ab9f3f93 c7b2968
Sunday, 6 Feb 2022
18:36 Stefan Eßer (se) search for other commits by this committer
Update CONFLICTS definitions in categories a* to c*

Update the CONFLICTS definitions of ports in the following categories:

- accessibility
- archivers
- audio
- benchmarks
- biology
- cad
- chinese
- comms
- converters

An attempt has been made to use generic conflicts patterns that do not
have to be updated whenever a new version of a conflicting port is
added to the ports system.

There is a misunderstanding that the port being built/installed has to
be omitted from the conflicts pattern. This is not true - the port
being built is implicitly non-conflicting due to logic in bsd.port.mk.

Approved by:	portmgr (implicit)
commit hash: bdd2d4af9630fdc1157d49bd193e8195c3240e9e commit hash: bdd2d4af9630fdc1157d49bd193e8195c3240e9e commit hash: bdd2d4af9630fdc1157d49bd193e8195c3240e9e commit hash: bdd2d4af9630fdc1157d49bd193e8195c3240e9e bdd2d4a
Tuesday, 25 Jan 2022
05:44 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: Update 2.4.18 -> 2.5.0
commit hash: 8615039c0cddc4eb7cc313105ad85ca7e1e0b0ff commit hash: 8615039c0cddc4eb7cc313105ad85ca7e1e0b0ff commit hash: 8615039c0cddc4eb7cc313105ad85ca7e1e0b0ff commit hash: 8615039c0cddc4eb7cc313105ad85ca7e1e0b0ff 8615039
Wednesday, 12 Jan 2022
19:41 Tobias C. Berner (tcberner) search for other commits by this committer
math/gsl: bump portrevision of consumers after update to 2.7.1

PR:		260201
commit hash: 654acd81409d31495f8b1b11db61e1afbf640981 commit hash: 654acd81409d31495f8b1b11db61e1afbf640981 commit hash: 654acd81409d31495f8b1b11db61e1afbf640981 commit hash: 654acd81409d31495f8b1b11db61e1afbf640981 654acd8
Wednesday, 16 Jun 2021
19:31 Tobias C. Berner (tcberner) search for other commits by this committer
math/gsl: update to 2.7

From [1]

* What is new in gsl-2.7:
	* fixed doc bug for gsl_histogram_min_bin (lhcsky at 163.com)
	* fixed bug #60335 (spmatrix test failure, J. Lamb)
	* fixed bug #36577
	* clarified documentation on interpolation accelerators (V. Krishnan)
	* fixed bug #45521 (erroneous GSL_ERROR_NULL in ode-initval2, thanks to M.
Sitte)
	* fixed doc bug #59758
	* fixed bug #58202 (rstat median for n=5)
	* added support for native C complex number types in gsl_complex
	   when using a C11 compiler
	* upgraded to autoconf 2.71, automake 1.16.3, libtool 2.4.6
	* updated exponential fitting example for nonlinear least squares
	* added banded LU decomposition and solver (gsl_linalg_LU_band)
	* New functions added to the library:
	      - gsl_matrix_norm1
	      - gsl_spmatrix_norm1
	      - gsl_matrix_complex_conjtrans_memcpy
	      - gsl_linalg_QL: decomp, unpack
	      - gsl_linalg_complex_QR_* (thanks to Christian Krueger)
	      - gsl_vector_sum
	      - gsl_matrix_scale_rows
	      - gsl_matrix_scale_columns
	      - gsl_multilarge_linear_matrix_ptr
	      - gsl_multilarge_linear_rhs_ptr
	      - gsl_spmatrix_dense_add (renamed from gsl_spmatrix_add_to_dense)
	      - gsl_spmatrix_dense_sub
	      - gsl_linalg_cholesky_band: solvem, svxm, scale, scale_apply
	      - gsl_linalg_QR_UD: decomp, lssolve
	      - gsl_linalg_QR_UU: decomp, lssolve, QTvec
	      - gsl_linalg_QR_UZ: decomp
	      - gsl_multifit_linear_lcurvature
	      - gsl_spline2d_eval_extrap
	* bug fix in checking vector lengths in gsl_vector_memcpy (dieggsy@pm.me)
	* made gsl_sf_legendre_array_index() inline and documented
	      - gsl_sf_legendre_nlm()

[1] http://git.savannah.gnu.org/cgit/gsl.git/tree/NEWS

PR:		256423
Exp-run by:	antoine
commit hash: 63e653adaa7493aa98f17f9fbc834c0aed7e096e commit hash: 63e653adaa7493aa98f17f9fbc834c0aed7e096e commit hash: 63e653adaa7493aa98f17f9fbc834c0aed7e096e commit hash: 63e653adaa7493aa98f17f9fbc834c0aed7e096e 63e653a
Saturday, 24 Apr 2021
01:57 Yuri Victorovich (yuri) search for other commits by this committer
biology/viennarna: Update 2.4.17 -> 2.4.18
commit hash: 874e67eb5c6bf27198b1cd8fcf0ea02f3d2176e0 commit hash: 874e67eb5c6bf27198b1cd8fcf0ea02f3d2176e0 commit hash: 874e67eb5c6bf27198b1cd8fcf0ea02f3d2176e0 commit hash: 874e67eb5c6bf27198b1cd8fcf0ea02f3d2176e0 874e67e
Wednesday, 7 Apr 2021
08:09 Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c cf118cc
Tuesday, 6 Apr 2021
14:31 Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb 305f148
Sunday, 6 Dec 2020
20:14 yuri search for other commits by this committer
biology/viennarna: Update 2.4.16 -> 2.4.17
Original commitRevision:557171 
Wednesday, 11 Nov 2020
23:27 yuri search for other commits by this committer
biology/viennarna: Update 2.4.15 -> 2.4.16
Original commitRevision:554920 
Monday, 7 Sep 2020
21:49 yuri search for other commits by this committer
biology/viennarna: Update 2.4.14 -> 2.4.15
Original commitRevision:547949 
Monday, 4 May 2020
21:31 dinoex search for other commits by this committer
- update libgd to 2.3.0
- new option RAQM
- resurrect deprecated gdlib-config
- bump dependend ports
Original commitRevision:533989 
Monday, 6 Jan 2020
04:17 yuri search for other commits by this committer
biology/viennarna: Update 2.4.13 -> 2.4.14

Reported by:	repology
Original commitRevision:522200 
Monday, 4 Nov 2019
21:08 zeising search for other commits by this committer
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'.
Original commitRevision:516742 
Friday, 25 Oct 2019
23:41 tcberner search for other commits by this committer
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
Original commitRevision:515671 
Friday, 26 Jul 2019
20:46 gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.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/bsd.octave.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
Original commitRevision:507372 
Monday, 24 Jun 2019
19:30 yuri search for other commits by this committer
biology/viennarna: Make it less/not prone to failures due to hardcoded C++
library name

configure and Makefile.in 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
Makefile.in 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.
Original commitRevision:505049 
09:29 yuri search for other commits by this committer
New port: biology/viennarna: Alignment tools for the structural analysis of RNA
Original commitRevision:505017 

Number of commits found: 26