4295 Commits

Author SHA1 Message Date
Sunpoet Po-Chuan Hsieh
eabe4c3755 Update to 1.0.4
- Remove DISTVERSIONPREFIX

Changes:	https://gitlab.dkrz.de/k202009/libaec/blob/master/CHANGELOG.md
2019-02-12 21:03:10 +00:00
Yuri Victorovich
cf2f1998fe science/py-pymol: Update 2.2.0 -> 2.3.0
Reported by:	portscout
2019-02-12 06:52:57 +00:00
Yuri Victorovich
4444ab4a8e science/mmtf: Update g20180730 -> 1.0.0
Bump science/avogadrolibs since it uses this headers-only library.
2019-02-12 06:18:05 +00:00
Yuri Victorovich
f4db8ca33c science/gabedit: Update 2.5.0 -> 2.5.1
Reported by:	repology (Fedora has 2.5.1 dev version)
2019-02-10 18:42:25 +00:00
Yuri Victorovich
da856e6fcb science/healpix: fix build with GCC-based architectures
PR:		235643
Submitted by:	Piotr Kubaj <pkubaj@anongoth.pl>
2019-02-10 17:09:19 +00:00
Yuri Victorovich
ba23be18cd science/spglib: 1.11.2.1 -> 1.12.2
Reported by:	repology
2019-02-10 01:33:34 +00:00
Yuri Victorovich
c443b8bf36 science/agrum: Update 0.13.6 -> 0.14.1
Reported by:	repology
2019-02-10 01:16:08 +00:00
Yuri Victorovich
d813c18453 science/abinit: Update 8.8.4 -> 8.10.2 2019-02-10 00:30:17 +00:00
Sunpoet Po-Chuan Hsieh
cb8f26a88d Update to 1.9.6
- Add ECCODES option

Changes:	https://code.mpimet.mpg.de/news/436
2019-02-09 23:27:28 +00:00
Yuri Victorovich
029d56f78c New port: science/py-oddt: Open Drug Discovery Toolkit 2019-02-09 22:51:25 +00:00
Tobias C. Berner
e349bbbca3 Update KDE Applications to 18.12.2
[1] https://www.kde.org/announcements/announce-applications-18.12.2.php
[2] https://www.kde.org/announcements/fulllog_applications-aether.php?version=18.12.2
2019-02-08 05:11:13 +00:00
Fernando Apesteguía
565b75c946 science/paraview: update to 5.6.0
* Delete a bunch of patches not needed anymore
* Complete USES with gl

No info for this release.

PR:	234896
Submitted by:	devel@stasyan.com (maintainer)
2019-02-07 16:58:51 +00:00
Sunpoet Po-Chuan Hsieh
620157e197 Update WWW 2019-02-05 13:52:01 +00:00
Sunpoet Po-Chuan Hsieh
df58d53a14 Update PORTSCOUT 2019-02-05 13:48:30 +00:00
Sunpoet Po-Chuan Hsieh
b2002314e8 Update to 1.9.0
- Update MASTER_SITES
- Update WWW

1.9.0:
- gribZip: remove large file support
- store Decimal scale factor to int16 (bug fix)
- bug fix for large grib records
- Added CALENDAR_GREGORIAN

1.8.1:
- Skip GridDataSection if not available
- Changed boolean ints to stdbool
- file_fill_buffer: set offset (bug fix) [patch from Harald Anlauf]

1.8.0:
- Fix unreliable rounding

1.7.6:
- Added support for GRIB level type 210
- gribReadSize/gribGetSize: changed type of  return value to size_t
- Removed libaec specific calls
2019-02-05 13:48:25 +00:00
Sunpoet Po-Chuan Hsieh
ba8a8ecb49 Update PORTSCOUT 2019-02-05 13:48:20 +00:00
Antoine Brodin
f60d9f9d66 py-abipy is not compatible with python2 2019-02-04 21:07:51 +00:00
Yuri Victorovich
5e60eaff7c science/py-pymatgen: python-3 only 2019-02-04 19:53:14 +00:00
Yuri Victorovich
25bf8ec553 science/py-pymatgen: Update 2018.10.18 -> 2019.1.24
portscout has missed this update.
2019-02-04 19:26:51 +00:00
Ben Woods
c099f5be4a science/gramps: Update to 5.0.1
Changes this release:
  https://gramps-project.org/introduction-WP/2018/07/gramps-5-0-0-released/
  https://gramps-project.org/introduction-WP/2018/12/gramps-5-0-1-released/
2019-02-04 14:14:38 +00:00
Antoine Brodin
72f4491c41 Deprecate ports broken for more than 6 months 2019-02-03 20:46:35 +00:00
David Chisnall
3f627ab4ce Move Objective-C ports to the v2 GNUstep ABI.
* Bump the LLVM revision used for GNUstep to 7, the minimum to support
   the new ABI.
 * GNUstep-back does not work with lld, so mark it to use Gold (BFD LD
   doesn't seem able to link Objective-C things).
 * Turn off some annoying debug logs in GNUstep back, which generate
   several messages per second when you move the mouse.  These should
   never have been enabled in a release build anyway.
 * Downgrade Cenon to 4.0.2.  This was the last version to actually work
   with GNUstep (the later ones use XCode >= 5 .xib files, which GNUstep
   can't parse).
 * Update gorm to git head. The current release doesn't work with the
   new Objective-C ABI, but -head has the patches to fix it.
 * Update PikoPixel and add it to the gnustep-app meta-package.
 * Update the three core GNUstep packages to the latest release.
 * Update gnumail and pantomime to the latest release and fix a linking
   error with the new ABI.
 * Update GNUstep FTP to the latest version.

Reviewed by:	bapt (previous version)
2019-02-03 15:37:58 +00:00
Tobias Kortkamp
0ce3311721 science/ALPSCore: Mark broken on i386
alea/src/autocorr.cpp:269:7: error: no matching member function for call to 'read'
    s.read("@size", ndview<size_t>(nullptr, &new_size, 0)); // discard
    ~~^~~~

http://beefy1.nyi.freebsd.org/data/112i386-quarterly/491666/logs/errors/ALPSCore-2.2.0_5.log
http://beefy5.nyi.freebsd.org/data/120i386-default/491665/logs/errors/ALPSCore-2.2.0_6.log

- Reset MAINTAINER

PR:		232993
Submitted by:	Michael Danilov <mike.d.ft402@gmail.com> (maintainer)
2019-02-02 17:53:04 +00:00
Yuri Victorovich
71977f2651 science/pcmsolver: Update 1.2.1 -> 1.2.2
Reported by:	portscout
2019-01-31 04:57:30 +00:00
Yuri Victorovich
f8c9f79e5e science/py-spglib: Update 1.11.1 -> 1.12.0
Reported by:	portscout
2019-01-31 04:47:08 +00:00
Yuri Victorovich
5208f41bde New port: science/healpix: Software for pixelization, visualization, etc of data on the sphere
Approved by:	portmgr
Differential Revision:	D18548
2019-01-28 09:33:12 +00:00
Yuri Victorovich
e6fb77ce12 New port: science/nwchem-data: Data for NWChem, the computational chemistry software
Split out data from science/nwchem to facilitate flavor creation there.
2019-01-26 22:00:10 +00:00
Yuri Victorovich
6de3d6383a science/nwchem: Update 6.8.1.20181107 -> 6.8.1.20190125 2019-01-26 20:59:45 +00:00
Yuri Victorovich
a31cd20709 science/datawarrior: Update 4.7.2 -> 5.0.0
Reported by:	repology
2019-01-26 08:01:20 +00:00
Yuri Victorovich
e04f7171a8 science/py-pymatgen: Update 2018.9.30 -> 2018.10.18
Reported by:	repology
2019-01-26 06:27:42 +00:00
Yuri Victorovich
d75d088d54 science/py-gpaw: Update 1.5.0 -> 1.5.1
Reported by:	portscout
2019-01-26 05:31:44 +00:00
Yuri Victorovich
f96277716c science/cp2k: Remove contiguous blank lines 2019-01-26 05:23:51 +00:00
Yuri Victorovich
7a4ad01d7a science/cp2k: Add missing executables that should be installed 2019-01-26 05:20:14 +00:00
Mark Linimon
9d8de19218 Conditionalize the dependence of libunwind to x86-only to allow building
these ports on !x86.

libunwind is only available for x86; lang/ruby* already expresses this
correctly.  Some of the rubygems did not: for the ones that already had
USE_RUBY, the dependency was overspecified in the first place.

Tested for no-harm on amd64.

While here, pet portlint where appropriate.

Approved by:	portmgr (tier-2 blanket)
2019-01-24 05:09:48 +00:00
Mathieu Arnold
08c11c4978 Sort categories Makefiles. 2019-01-22 16:26:49 +00:00
Guido Falsi
41ff4e536e Clenup xfce ports:
- Add missing dependencies
- Remove unneeded patches
- Regenerate and rename legacy patches
- Add NLS option to ports providing such a knob, and missing the
  option
- Add INSTALL_TARGET=install-strip where missing
- Sort things
- Remove unneeded +=
- Cosmetic changes to OPTION related variables to improve readability
- Update WWW
- Silence portlint warnings about variables order
- Bump PORTREVISION where changing dependencies and/or adding
  install-strip
2019-01-22 14:44:38 +00:00
Yuri Victorovich
83536c685a science/agrum: Update 0.13.4 -> 0.13.6
Reported by:	repology
2019-01-22 03:06:25 +00:00
Yuri Victorovich
ed75b0b4f0 science/gromacs: Update 2018.4 -> 2019
Reported by:	repology
2019-01-22 02:02:15 +00:00
Yuri Victorovich
546c380f50 science/spglib: Update 1.11.2 -> 1.11.2.1
Reported by:	portscout
2019-01-21 09:26:33 +00:00
Yuri Victorovich
aa9ea3249e science/octopus: patches 2019-01-20 01:22:46 +00:00
Yuri Victorovich
37c3652c36 science/octopus: Unbundle spglib; Add OPENMP option that makes it parallelized by default 2019-01-20 01:04:39 +00:00
Tobias C. Berner
82cde37c81 science/mcstas-comps: fix RUN_DEPENDS
Approved by:	portmgr blanket
2019-01-19 09:48:16 +00:00
Antoine Brodin
b5b2da5598 Mark BROKEN: missing RUN_DEPENDS
===>   mcstas-comps-2.2a depends on file: /usr/local/mcstas/2.2a/bin/mcstas - not found

Reported by:	pkg-fallout
2019-01-19 07:17:55 +00:00
Yuri Victorovich
9fe291bb3c science/erkale: Update 0c285c1 -> 4bd3930 2019-01-18 16:25:43 +00:00
Yuri Victorovich
249fd7f792 science/py-rmsd: Fix CATEGORIES 2019-01-18 02:07:03 +00:00
Yuri Victorovich
6cee334b36 New port: science/py-rmsd: Calculate root-mean-square deviation (RMSD) between coordinate sets 2019-01-18 02:03:39 +00:00
Sunpoet Po-Chuan Hsieh
5542508c35 Add py-asdf 2.3.1
The Advanced Scientific Data Format (ASDF) is a next-generation interchange
format for scientific data. This package contains the Python implementation of
the ASDF Standard.

The ASDF format has the following features:
- A hierarchical, human-readable metadata format (implemented using YAML)
- Numerical arrays are stored as binary data blocks which can be memory mapped.
  Data blocks can optionally be compressed.
- The structure of the data can be automatically validated using schemas
  (implemented using JSON Schema)
- Native Python data types (numerical types, strings, dicts, lists) are
  serialized automatically
- ASDF can be extended to serialize custom data types

WWW: https://github.com/spacetelescope/asdf
2019-01-17 19:21:25 +00:00
Yuri Victorovich
f61a4ea522 New port: science/erkale-pseudopotentials: Pseudopotentials for Erkale, the quantum chemistry program 2019-01-17 09:42:53 +00:00
Yuri Victorovich
26eefa7fb5 science/erkale: Update 0927d8c -> 0c285c1
Port changes:
* Add the standard location for erkale's pseudopotentials.
* Add pkg-message suggesting to install erkale-pseudopotentials
2019-01-17 09:40:24 +00:00
Yuri Victorovich
7463d93b02 science/py-OpenFermion: Update 0.8 -> 0.9.0
Reported by:	portscout
2019-01-17 06:31:46 +00:00