| Port details |
- lm Software for sampling trajectories of the reaction-diffusion equations
- 2.3.0_11 science
 =0      2.3.0_11Version of this port present on the latest quarterly branch.  BROKEN: unfetchable
 DEPRECATED: Broken for more than 6 months
 This port expired on: 2020-08-26
 IGNORE: is marked as broken: unfetchable
- Maintainer: yuri@FreeBSD.org
- Port Added: 2018-09-09 20:57:45
- Last Update: 2020-08-27 11:25:47
- SVN Revision: 546333
- License: UIUC_OPEN_SOURCE_LICENSE
- WWW:
- http://www.scs.illinois.edu/schulten/lm/
- Description:
- Lattice Microbes is a software package for efficiently sampling trajectories
from the chemical and reaction-diffusion master equations (CME/RDME) on high
performance computing (HPC) infrastructure using both exact and approximate
methods. pyLM is a problem solving environment written in Python that leverages
the high-performance nature of the Lattice Microbes package while providing ease
of use for common stochastic simulations and high customizability for complex
biological applications.
WWW: http://www.scs.illinois.edu/schulten/lm/
 cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- No installation instructions:
- This port has been deleted.
- PKGNAME: lm-uiuc
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1536517852
SHA256 (lm-2.3.0-src.tar.gz) = c1a7908997e46c6590e179a4a269cbaddaab8533c7b9b3c9ff2297f5fd6dbe0c
SIZE (lm-2.3.0-src.tar.gz) = 7657245
No package information for this port in our database- Sometimes this happens. Not all ports have packages. Perhaps there is a build error. Check the fallout link:
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- swig : devel/swig
- arrayobject.h : math/py-numpy@py37
- gmake>=4.3 : devel/gmake
- gfortran9 : lang/gcc9
- python3.7 : lang/python37
- as : devel/binutils
- Runtime dependencies:
-
- gfortran9 : lang/gcc9
- python3.7 : lang/python37
- Library dependencies:
-
- libhdf5.so : science/hdf5
- libprotobuf.so : devel/protobuf
- libsz.so : science/szip
- libmpich.so : net/mpich
- libintl.so : devel/gettext-runtime
- There are no ports dependent upon this port
Configuration Options:- ===> The following configuration options are available for lm-uiuc-2.3.0_11:
MPI=on: MPI (Message Passing Interface) support
PYTHON=on: Python bindings or support
VMD=off: Build the VMD plugin
===> Use 'make config' to modify these settings
- Options name:
- N/A
- USES:
- compiler:c++11-lang gettext-runtime gmake fortran python
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
2.3.0_11
27 Aug 2020 11:25:47
  |
rene |
Remove expired ports:
2020-08-26 audio/timidity++-tcltk: Broken for more than 6 months
2020-08-26 biology/pbcopper: Broken for more than 6 months
2020-08-26 devel/ace: Broken for more than 6 months
2020-08-26 devel/bin86: Broken for more than 6 months
2020-08-26 devel/erlang-oserl: Broken for more than 6 months
2020-08-20 emulators/qemu40: Please consider using qemu or qemu41
2020-08-26 games/linux-darwinia-demo: Broken for more than 6 months
2020-08-26 games/linux-defcon: Broken for more than 6 months
2020-08-26 games/linux-uplink-demo: Broken for more than 6 months
2020-08-26 games/xevil: Broken for more than 6 months
2020-08-26 games/xminesweep: Broken for more than 6 months
2020-08-26 graphics/backfract: Broken for more than 6 months
2020-08-26 japanese/kanjipad: Broken for more than 6 months (Only the first 15 lines of the commit message are shown above  ) |
2.3.0_11
26 Jul 2020 07:32:00
|
antoine |
Deprecate ports broken for more than 6 months |
2.3.0_11
17 Jun 2020 18:17:45
|
sunpoet |
Move devel/swig30 to devel/swig and update to 4.0.1
- Do not silence installation message
- Update dependent ports:
- Fix build with swig 4.0.1
- Update *_DEPENDS
- Remove BINARY_ALIAS
Changes: http://www.swig.org/news.php
PR: 246613
Exp-run by: antoine |
2.3.0_11
03 Jun 2020 18:32:06
|
sunpoet |
Bump PORTREVISION for devel/protobuf shlib change |
2.3.0_10
22 Jan 2020 05:53:20
|
sunpoet |
Bump PORTREVISION for devel/protobuf shlib change |
2.3.0_9
06 Jan 2020 03:27:22
|
yuri |
science/lm: Really unfetchable |
2.3.0_9
06 Jan 2020 03:16:57
|
yuri |
science/lm: Not broken
Erroneously labeled as BROKEN/unfetchable in rev.522132,
which may have been made during a period of intermittent connectivity problems. |
2.3.0_9
05 Jan 2020 10:26:04
|
antoine |
Mark a few ports broken (unfetchable) |
2.3.0_9
31 Jul 2019 16:38:53
|
sunpoet |
Bump PORTREVISION for devel/protobuf shlib change |
2.3.0_8
26 Jul 2019 20:46:57
|
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 |
2.3.0_7
05 Jul 2019 19:08:49
|
sunpoet |
Update devel/protobuf to 3.8.0
- Bump PORTREVISION of dependent ports for shlib change
Changes: https://github.com/protocolbuffers/protobuf/releases
PR: 238808
Exp-run by: antoine |
2.3.0_6
22 Apr 2019 13:16:34
|
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 |
2.3.0_5
31 Mar 2019 13:41:03
|
sunpoet |
Update devel/protobuf to 3.7.1
- Bump PORTREVISION of dependent ports for shlib change
Changes: https://github.com/protocolbuffers/protobuf/releases
PR: 236157
Exp-run by: antoine |
2.3.0_4
17 Jan 2019 06:24:51
|
yuri |
science/lm: Do not set VMD_VARS twice
PR: 234747
Reported by: tobik |
2.3.0_4
05 Jan 2019 22:46:54
|
sunpoet |
Update science/hdf5 to 1.10.4
- Bump PORTREVISION of dependent ports for shlib change
Changes: https://portal.hdfgroup.org/display/support/HDF5%201.10.4#releasenotes
PR: 233070
Submitted by: wen |
2.3.0_3
12 Dec 2018 01:35:36
|
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 |
2.3.0_2
03 Dec 2018 19:41:33
|
sunpoet |
Update devel/protobuf to 3.6.1
- Bump PORTREVISION of dependent ports for shlib change
Changes: https://github.com/protocolbuffers/protobuf/releases
PR: 231008
Exp-run by: antoine |
2.3.0_1
22 Sep 2018 16:36:38
|
yuri |
Change 20 ports from net/mpich2 to net/mpich
mpich2 is the obsolete version 2.x, mpich is at the current version 3.x
Ports:
math/scalapack science/nwchem science/quantum-espresso science/qmcpack
science/madness
science/qbox science/openmx science/jdftx science/fleur science/libgridxc
science/mdynamix science/lm science/dftbplus science/py-gpaw devel/ga
math/elpa net/charm science/gromacs math/pari math/arpack-ng-mpich |
2.3.0
09 Sep 2018 21:16:02
|
yuri |
science/lm: USES=python only when PYTHON=ON |
2.3.0
09 Sep 2018 20:57:26
|
yuri |
New port: science/lm: Software for sampling trajectories of the
reaction-diffusion equations |
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