23:22 Yuri Victorovich (yuri) 

science/octopus: update 11.4 → 13.0

    ffa8992

06:51 Yuri Victorovich (yuri) 

science/{,py-}spglib: update 2.0.2 → 2.1.0

Reported by:	portscout

    773d138

17:13 Daniel Engberg (diizzy) 

*/*: Bump jpeg-turbo users treewide

New major version 3.0.0

    664a2fa

09:09 Gerald Pfeifer (gerald) 

*: Bump PORTREVISIONs for math/mpc update to 1.3.1

    8d3e020

14:47 Thierry Thomas (thierry) 

science/*: bump PORTREVISION in consumers of libXC

    cceff44

20:11 Yuri Victorovich (yuri) 

science/octopus: Add USE_GCC=11

octopus isn't yet compatible with gcc-12.

PR:		266196
Reported by:	salvadore@

    0e853a1

02:36 Yuri Victorovich (yuri) 

science/spglib: Update 1.16.5 -> 2.0.1

    1390f54

21:10 Stefan Eßer (se) 

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)

    b7f0544

09:12 Yuri Victorovich (yuri) 

science/octopus: Cosmetic changes

    1f912cd

09:01 Yuri Victorovich (yuri) 

science/octopus: Update 11.3 -> 11.4

    ffbb11a

18:24 Yuri Victorovich (yuri) 

science/octopus: Broken on aarch64

Reported by:	portscout

    7ba8d98

19:41 Tobias C. Berner (tcberner) 

math/gsl: bump portrevision of consumers after update to 2.7.1

PR:		260201

    654acd8

21:53 Yuri Victorovich (yuri) 

science/octopus: Backport the fix for testsuite

    f14c260

00:22 Yuri Victorovich (yuri) 

science/octopus: Update 10.5 -> 11.3

    78f4a2d

01:32 Yuri Victorovich (yuri) 

science/[,py-]spglib: Update 1.16.1 -> 1.16.2

Reported by:	portscout

    d1a7674

01:57 Yuri Victorovich (yuri) 

science/octopus: Update 10.3 -> 10.5

    da1834d

19:31 Tobias C. Berner (tcberner) 

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

    63e653a

08:09 Mathieu Arnold (mat) 

One more small cleanup, forgotten yesterday.
Reported by:	lwhsu

    cf118cc

14:31 Mathieu Arnold (mat) 

Remove # $FreeBSD$ from Makefiles.

    305f148

07:49 yuri 

science/octopus: Update 10.1 -> 10.3

 

22:39 linimon 

Add workaround for new failure with Fortran GCC 10 frontend:

  BOZ literal constant at (1) is neither a data-stmt-constant nor an actual
argument to INT, REAL, DBLE, or CMPLX intrinsic function

PR:		246700
Approved by:	maintainer

 

05:36 yuri 

science/octopus: Update 9.2 -> 10.1

 

10:03 antoine 

Mark BROKEN

gfortran9 -I/usr/local/include -ffree-line-length-none
-Wl,-rpath=/usr/local/lib/gcc9 -fopenmp -I ../external_libs/bpdn -I
../external_libs/dftd3 -I ../external_libs/spglib-1.9.9/src/ -I /usr/include  
-I/usr/include -I /include  -c  -o species/atomic.o species/atomic_oct.f90
f951: Warning: Nonexistent include directory
'../external_libs/spglib-1.9.9/src/' [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory '/include' [-Wmissing-include-dirs]
species/atomic.F90:299:26:

  299 |     type(XC_F90(pointer_t)) :: x_conf, c_conf
      |                          1
Error: Derived type 'xc_f90_pointer_t' at (1) is being used before it is defined
species/atomic.F90:300:26:

  300 |     type(XC_F90(pointer_t)) :: x_info, c_info
      |                          1
Error: Derived type 'xc_f90_pointer_t' at (1) is being used before it is defined
species/atomic.F90:322:34:

  322 |       call XC_F90(func_init)(c_conf, c_info, XC_GGA_C_PBE, NSPIN)
      |                                  1
Error: Symbol 'c_conf' at (1) has no IMPLICIT type
species/atomic.F90:322:42:

  322 |       call XC_F90(func_init)(c_conf, c_info, XC_GGA_C_PBE, NSPIN)
      |                                          1
Error: Symbol 'c_info' at (1) has no IMPLICIT type
species/atomic.F90:321:34:

  321 |       call XC_F90(func_init)(x_conf, x_info, XC_GGA_X_PBE, NSPIN)
      |                                  1
Error: Symbol 'x_conf' at (1) has no IMPLICIT type
species/atomic.F90:321:42:

  321 |       call XC_F90(func_init)(x_conf, x_info, XC_GGA_X_PBE, NSPIN)
      |                                          1
Error: Symbol 'x_info' at (1) has no IMPLICIT type

Reported by:	pkg-fallout

 

21:31 dinoex 

- update libgd to 2.3.0
- new option RAQM
- resurrect deprecated gdlib-config
- bump dependend ports

 

01:17 yuri 

science/octopus: Update 8.4 -> 9.2

 

23:35 yuri 

science/octopus: Correct URL

 

23:32 yuri 

science/octopus: Unbreak by correcting MASTER_SITES: the project has moved to a
new URL

 

20:51 antoine 

Deprecate ports broken for more than 6 months

 

16:26 antoine 

Mark a few ports BROKEN (unfetchable)

 

23:41 tcberner 

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

 

20:46 gerald 

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

 

16:05 antoine 

Clean up LIB_DEPENDS

 

13:16 gerald 

Related to revision 499061 bump ports with USES=fortran to have them
benefit from the improved situation where libgcc_s is only used when
absolutely necessary.

Suggested by:	tijl

 

03:06 yuri 

science/octopus: Update 8.3 -> 8.4

 

01:04 yuri 

science/octopus: Unbundle spglib; Add OPENMP option that makes it parallelized
by default

 

02:21 yuri 

science/octopus: Update 8.2 -> 8.3

Reported by:	repology

 

01:35 gerald 

Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 under most circumstances.

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, as a double check, everything INDEX-11 showed depending on lang/gcc7.

PR:		231590

 

23:29 yuri 

science/libxc: Update 3.0.0 -> 4.2.3

PR:		231648
Approved by:	dieterich@ogolem.org (maintainer's timeout; 27 days)

 

21:10 yuri 

science/dftbplus science/mbdyn science/octopus: Change from math/arpack to
math/arpack-ng

 

17:54 yuri 

New port: science/octopus: Scientific program aimed at the ab initio virtual
experimentation