Port details |
- py-orange3-single-cell Orange add-on for gene expression of single cell data
- 0.8.2_3 biology
=0 0.8.2_3Version of this port present on the latest quarterly branch. - Maintainer: yuri@FreeBSD.org
 - Port Added: 2018-08-07 07:50:53
- Last Update: 2022-01-23 20:56:25
- Commit Hash: 48d98ef
- Also Listed In: python
- License: AGPLv3+
- Description:
- The Single Cell add-on for Orange3 adds functionality for analysis of single
cell data.
WWW: https://singlecell.biolab.si/
- SVNWeb : git : Homepage
- pkg-plist: as obtained via:
make generate-plist - There is no configure plist information for this port.
- Dependency lines:
-
- ${PYTHON_PKGNAMEPREFIX}orange3-single-cell>0:biology/py-orange3-single-cell@${PY_FLAVOR}
- To install the port:
- cd /usr/ports/biology/py-orange3-single-cell/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/py-orange3-single-cell
- pkg install py38-orange3-single-cell
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.NOTE: This is a Python port. Instead of py38-orange3-single-cell listed in the above command, you can pick from the names under the Packages section.- PKGNAME: py38-orange3-single-cell
- Package flavors (<flavor>: <package>)
- py38: py38-orange3-single-cell
- distinfo:
- TIMESTAMP = 1539761270
SHA256 (biolab-orange3-single-cell-0.8.2_GH0.tar.gz) = eebda4303c208951fcbe8f383e0f310b20abedba425b0c68bbe65ae2806cc1bb
SIZE (biolab-orange3-single-cell-0.8.2_GH0.tar.gz) = 5521782
- Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- gmake : devel/gmake
- py38-sphinx>=0,1 : textproc/py-sphinx@py38
- py38-setuptools>0 : devel/py-setuptools@py38
- python3.8 : lang/python38
- Runtime dependencies:
-
- orange3>0 : misc/orange3
- py38-orange3-bioinformatics>0 : biology/py-orange3-bioinformatics@py38
- py38-astropy>0 : astro/py-astropy@py38
- py38-fastdtw>0 : math/py-fastdtw@py38
- py38-joblib>=0.11 : devel/py-joblib@py38
- py38-loompy>=2.0.10 : biology/py-loompy@py38
- py38-networkx>0 : math/py-networkx@py38
- py38-pandas>=0.23 : math/py-pandas@py38
- py38-scikit-learn>0 : science/py-scikit-learn@py38
- py38-numpy>=1.16,1<1.21,1 : math/py-numpy@py38
- py38-setuptools>0 : devel/py-setuptools@py38
- python3.8 : lang/python38
- There are no ports dependent upon this port
- Configuration Options:
- ===> The following configuration options are available for py38-orange3-single-cell-0.8.2_3:
DOCS=on: Build and/or install documentation
===> Use 'make config' to modify these settings
- Options name:
- biology_py-orange3-single-cell
- USES:
- python:3.7+
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Commit History - (may be incomplete: see SVNWeb link above for full details) |
Date | By | Description |
23 Jan 2022 20:56:25 0.8.2_3
|
Rene Ladan (rene)  |
cleanup: remove transitive py27 deprecation (www/qt5-webengine) |
11 Jan 2022 02:48:50 0.8.2_3
|
Yasuhiro Kimura (yasu)  Author: Danilo G. Baio |
textproc/py-sphinx: Update to 4.3.1
ChangeLog: https://github.com/sphinx-doc/sphinx/blob/v4.3.1/CHANGES
PR: 257116
Approved by: python (dbaio) |
07 Apr 2021 08:09:01 0.8.2_3
|
Mathieu Arnold (mat)  |
One more small cleanup, forgotten yesterday.
Reported by: lwhsu |
06 Apr 2021 14:31:07 0.8.2_3
|
Mathieu Arnold (mat)  |
Remove # $FreeBSD$ from Makefiles. |
24 Mar 2021 13:34:36
0.8.2_3
|
rene  |
Mark ports recursively depending on Python 2.7 for expiration on June 23.
For ports optionally dependending on Python 2.7, just mark those options
as expired. Remove konquerer from the x11/kde-baseapps metaport and bump
its PORTREVISION.
Submitted by: rene
Reviewed by: portmgr, adridg, ehaupt, lme, madpilot, pizzamig, se, sunpoet, yuri
Approved by: portmgr
Differential Revision: https://reviews.freebsd.org/D28665 |
30 Jan 2021 13:29:58
0.8.2_3
|
sunpoet  |
Update USES=python: math/py-pandas 1.2.0 requires Python 3.7+
PR: 250103 |
14 Jan 2021 14:34:38
0.8.2_3
|
dbaio  |
Remove PY_SPHINX from ports using Python 3
Approved by: portmgr blanket
Differential Revision: https://reviews.freebsd.org/D28093 |
11 May 2020 23:51:58
0.8.2_3
|
dbaio  |
Update Sphinx
- Repocopy textproc/py-sphinx to textproc/py-sphinx18
Update it to 1.8.5 (latest version from 1.8.X).
This version supports Python 2 and 3.
Add test target.
- textproc/py-sphinx: Update to 3.0.2
Python 3 only (3.5+).
Add test target.
- Mk/Uses/python.mk: Add PY_SPHINX
(Only the first 15 lines of the commit message are shown above ) |
26 Jul 2019 20:46:57
0.8.2_3
|
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 Jan 2019 11:13:45
0.8.2_2
|
tijl  |
Fix Qt5 symbol version scripts to put the catch-all clause first. When
a symbol matches multiple clauses the last one takes precedence. If the
catch-all is last it captures everything. In the case of Qt5 libraries
this caused all symbols to have a Qt_5 label while some should have
Qt_5_PRIVATE_API. This only affects lld because GNU ld always gives the
catch-all lowest priority.
Older versions of Qt5Webengine exported some memory allocation symbols from
the bundled Chromium. Version 5.9 stopped exporting these [1] but the
symbols were kept as weak wrappers for the standard allocation functions to
maintain binary compatibility. [2][3] The problem is that the call to the
standard function in these weak wrappers is only resolved to the standard
function if there's a call to this standard function in other parts of
Qt5Webengine, because only then is there a non-weak symbol that takes
precedence over the weak one. If there's no such non-weak symbol the call (Only the first 15 lines of the commit message are shown above ) |
11 Jan 2019 15:09:35
0.8.2_1
|
mat  |
Fixup bulk -a errors with BUILD_ALL_PYTHON_FLAVORS=yes. |
12 Dec 2018 01:35:36
0.8.2_1
|
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 |
17 Oct 2018 07:31:34
0.8.2
|
yuri  |
biology/py-orange3-single-cell: Update 0.8.1 -> 0.8.2
Reported by: portscout |
14 Oct 2018 04:43:08
0.8.1
|
yuri  |
biology/py-orange3-single-cell: Update 0.8.0 -> 0.8.1
Reported by: portscout |
08 Aug 2018 23:08:51
0.8.0
|
yuri  |
biology/py-orange3-single-cell: Update 0.7.0 -> 0.8.0
Reported by: portscout |
07 Aug 2018 07:50:40
0.7.0
|
yuri  |
New port: biology/py-orange3-single-cell: Orange add-on for gene expression of
single cell data |