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| author | Yuri Victorovich <yuri@FreeBSD.org> | 2021-03-13 23:37:12 +0000 |
|---|---|---|
| committer | Yuri Victorovich <yuri@FreeBSD.org> | 2021-03-13 23:37:12 +0000 |
| commit | 2fdb4f61f644490f7c4cbcb43453af33a860b82a (patch) | |
| tree | a679578c476b4874a62efcb5bfb2426522bc3218 /biology | |
| parent | 7539c9ee2a3c88e014ec3a6de2e89e4cf6e5a59a (diff) | |
| download | ports-2fdb4f61f644490f7c4cbcb43453af33a860b82a.tar.gz ports-2fdb4f61f644490f7c4cbcb43453af33a860b82a.zip | |
Move: biology/py-fastTSNE -> math/py-openTSNE
Project was renamed and reimplemented.
Notes
Notes:
svn path=/head/; revision=568296
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/py-fastTSNE/Makefile | 27 | ||||
| -rw-r--r-- | biology/py-fastTSNE/distinfo | 3 | ||||
| -rw-r--r-- | biology/py-fastTSNE/files/patch-setup.py | 12 | ||||
| -rw-r--r-- | biology/py-fastTSNE/pkg-descr | 6 |
5 files changed, 0 insertions, 49 deletions
diff --git a/biology/Makefile b/biology/Makefile index 3aa380367185..0172e7b4fac9 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -131,7 +131,6 @@ SUBDIR += py-cutadapt SUBDIR += py-dnaio SUBDIR += py-ete3 - SUBDIR += py-fastTSNE SUBDIR += py-gffutils SUBDIR += py-gtfparse SUBDIR += py-hits diff --git a/biology/py-fastTSNE/Makefile b/biology/py-fastTSNE/Makefile deleted file mode 100644 index 1cb3bb986913..000000000000 --- a/biology/py-fastTSNE/Makefile +++ /dev/null @@ -1,27 +0,0 @@ -# $FreeBSD$ - -PORTNAME= fastTSNE -DISTVERSION= 0.2.13 -PORTREVISION= 4 -CATEGORIES= biology python -MASTER_SITES= CHEESESHOP -PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} - -MAINTAINER= yuri@FreeBSD.org -COMMENT= Fast, parallel implementations of t-SNE - -LICENSE= BSD3CLAUSE - -BUILD_DEPENDS= ${PYNUMPY} -LIB_DEPENDS= libfftw3.so:math/fftw3 -RUN_DEPENDS= ${PYNUMPY} \ - ${PYTHON_PKGNAMEPREFIX}numba>=0.38.1:devel/py-numba@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}scipy>0:science/py-scipy@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}scikit-learn>=0.20.0:science/py-scikit-learn@${PY_FLAVOR} - -USES= localbase:ldflags python:3.5+ -USE_PYTHON= distutils autoplist - -PORTSCOUT= skipv:0.2.14 # no such version, not sure where does portscout see it - -.include <bsd.port.mk> diff --git a/biology/py-fastTSNE/distinfo b/biology/py-fastTSNE/distinfo deleted file mode 100644 index 1d05309d308e..000000000000 --- a/biology/py-fastTSNE/distinfo +++ /dev/null @@ -1,3 +0,0 @@ -TIMESTAMP = 1544862153 -SHA256 (fastTSNE-0.2.13.tar.gz) = c602acf5e61f80bdda1bdfe91838ec89d7fdbdbb072e54c0d8da31c35fc964a0 -SIZE (fastTSNE-0.2.13.tar.gz) = 687321 diff --git a/biology/py-fastTSNE/files/patch-setup.py b/biology/py-fastTSNE/files/patch-setup.py deleted file mode 100644 index d2bb2d1d4607..000000000000 --- a/biology/py-fastTSNE/files/patch-setup.py +++ /dev/null @@ -1,12 +0,0 @@ ---- setup.py.orig 2018-12-15 08:37:12 UTC -+++ setup.py -@@ -87,7 +87,8 @@ extensions = [ - ] - - # Check if we have access to FFTW3 and if so, use that implementation --if has_c_library('fftw3'): -+# has_c_library fails to use CFLAGS: https://github.com/pavlin-policar/fastTSNE/issues/43 -+if True or has_c_library('fftw3'): - lm_opt = '/lm' if IS_WINDOWS else '-lm' - fftw3_opt = '/lfftw3' if IS_WINDOWS else '-lfftw3' - extensions.append( diff --git a/biology/py-fastTSNE/pkg-descr b/biology/py-fastTSNE/pkg-descr deleted file mode 100644 index 5d168f46e2d6..000000000000 --- a/biology/py-fastTSNE/pkg-descr +++ /dev/null @@ -1,6 +0,0 @@ -Fast, parallel implementations of t-SNE allows, for example, in one case -to visualize 160,796 single cell transcriptomes from the mouse nervous system -computed in under 2 minutes using FFT accelerated interpolation and approximate -nearest neighbors. - -WWW: https://github.com/pavlin-policar/fastTSNE |