notbugIf you buy from Amazon USA, please support us by using this link.
Port details
py-orange3-single-cell Orange add-on for gene expression of single cell data
0.8.2_2 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2018-08-07 07:50:53
Last Update: 2019-01-16 11:13:45
SVN Revision: 490472
Also Listed In: python
License: AGPLv3+
The Single Cell add-on for Orange3 adds functionality for analysis of single
cell data.

WWW: https://singlecell.biolab.si/
SVNWeb : Homepage : PortsMon

There is no configure plist information for this port.

Dependency line: py36-orange3-single-cell>0:biology/py-orange3-single-cell


To install the port: cd /usr/ports/biology/py-orange3-single-cell/ && make install clean
To add the package: pkg install py36-orange3-single-cell

PKGNAME: py36-orange3-single-cell

Package flavors (<flavor>: <package>)
  • py36: py36-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


NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. gmake : devel/gmake
  2. py36-sphinx>0 : textproc/py-sphinx@py36
  3. py36-setuptools>0 : devel/py-setuptools@py36
  4. python3.6 : lang/python36
Runtime dependencies:
  1. orange3>0 : misc/orange3
  2. py36-orange3-bioinformatics>0 : biology/py-orange3-bioinformatics@py36
  3. py36-astropy>0 : astro/py-astropy@py36
  4. py36-fastdtw>0 : math/py-fastdtw@py36
  5. py36-joblib>=0.11 : devel/py-joblib@py36
  6. py36-loompy>=2.0.10 : biology/py-loompy@py36
  7. py36-networkx>0 : math/py-networkx@py36
  8. py36-pandas>=0.23 : math/py-pandas@py36
  9. py36-scikit-learn>0 : science/py-scikit-learn@py36
  10. py36-numpy>0 : math/py-numpy@py36
  11. py36-setuptools>0 : devel/py-setuptools@py36
  12. python3.6 : lang/python36
There are no ports dependent upon this port

Configuration Options
===> The following configuration options are available for py36-orange3-single-cell-0.8.2_2:
     DOCS=on: Build and/or install documentation
===> Use 'make config' to modify these settings

USES:
python:3.6+

Master Sites:
  1. https://codeload.github.com/biolab/orange3-single-cell/tar.gz/0.8.2?dummy=/
Notes from UPDATING
These upgrade notes are taken from /usr/ports/UPDATING
  • 2017-11-30
    Affects: */py*
    Author: mat@FreeBSD.org
    Reason: 
      Ports using Python via USES=python are now flavored.  All the py3-* ports
      have been removed and folded into their py-* master ports.
    
      People using Poudriere 3.2+ and binary packages do not have to do anything.
    
      For other people, to build the Python 3.6 version of, for example,
      databases/py-gdbm, you need to run:
    
        # make FLAVOR=py36 install
    
    

Number of commits found: 7

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
16 Jan 2019 11:13:45
Original commit files touched by this commit  0.8.2_2
Revision:490472
tijl search for other commits by this committer
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 View all of this commit message)
11 Jan 2019 15:09:35
Original commit files touched by this commit  0.8.2_1
Revision:489980
mat search for other commits by this committer
Fixup bulk -a errors with BUILD_ALL_PYTHON_FLAVORS=yes.
12 Dec 2018 01:35:36
Original commit files touched by this commit  0.8.2_1
Revision:487272
gerald search for other commits by this committer
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
Original commit files touched by this commit  0.8.2
Revision:482277
yuri search for other commits by this committer
biology/py-orange3-single-cell: Update 0.8.1 -> 0.8.2

Reported by:	portscout
14 Oct 2018 04:43:08
Original commit files touched by this commit  0.8.1
Revision:482023
yuri search for other commits by this committer
biology/py-orange3-single-cell: Update 0.8.0 -> 0.8.1

Reported by:	portscout
08 Aug 2018 23:08:51
Original commit files touched by this commit  0.8.0
Revision:476691
yuri search for other commits by this committer
biology/py-orange3-single-cell: Update 0.7.0 -> 0.8.0

Reported by:	portscout
07 Aug 2018 07:50:40
Original commit files touched by this commit  0.7.0
Revision:476578
yuri search for other commits by this committer
New port: biology/py-orange3-single-cell: Orange add-on for gene expression of
single cell data

Number of commits found: 7

Login
User Login
Create account

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD

This site
What is FreshPorts?
About the authors
Issues
FAQ
How big is it?
The latest upgrade!
Privacy
Forums
Blog
Contact

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
jenkinsJan 16
jenkins-ltsJan 16
py-matrix-synapseJan 15
irssiJan 10
giteaJan 06
uriparserJan 06
chromiumJan 05
chromiumJan 05
openjpeg*Jan 05
py-django111Jan 05
py-django20Jan 05
py-django21Jan 05
gitlab-ceJan 02
rpm4Dec 26
gitlab-ceDec 22

10 vulnerabilities affecting 54 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities

Last updated:
2019-01-16 17:44:00


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds

Statistics
Graphs
NEW Graphs (Javascript)
Traffic

Calculated hourly:
Port count 35984
Broken 115
Deprecated 412
Ignore 328
Forbidden 3
Restricted 162
No CDROM 74
Vulnerable 33
Expired 5
Set to expire 385
Interactive 0
new 24 hours 4
new 48 hours7
new 7 days29
new fortnight80
new month158

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD
Valid HTML, CSS, and RSS.
Copyright © 2000-2019 Dan Langille. All rights reserved.