freebsd/ports
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

- Updat to version 0.6

Browse Source 
- Since Martel is currently only maintained as part of the Biopython
  distribution, switch to a using locally maintained distfile culled from the
  Biopython CVS repo, including the "doc" subdirectory from Martel 0.5
This commit is contained in:
Johann Visagie
2001-10-18 10:51:57 +00:00
parent e25b2bd4ac
commit e54e3e4e10
4 changed files with 24 additions and 168 deletions
Download Patch File Download Diff File Expand all files Collapse all files

23
textproc/py-martel/Makefile
View File

@@ -6,34 +6,32 @@
#
PORTNAME= martel
PORTVERSION= 0.5
PORTREVISION= 4
PORTVERSION= 0.6
PORTEPOCH= 1
CATEGORIES= textproc biology python
MASTER_SITES= http://www.biopython.org/~dalke/Martel/
MASTER_SITES= ${MASTER_SITE_LOCAL}
MASTER_SITE_SUBDIR= wjv
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
DISTNAME= Martel-${PORTVERSION}
MAINTAINER= wjv@FreeBSD.org
BUILD_DEPENDS= ${PYDISTUTILS}
RUN_DEPENDS= ${PYTHON_SITELIBDIR}/mx/TextTools/__init__.py:${PORTSDIR}/lang/py-mx-base
USE_PYTHON= yes
MARTEL_DIR= ${PREFIX}/lib/${PYTHON_VERSION}/site-packages/Martel
EXAMPLESDIR= ${PREFIX}/share/examples/martel
USE_BZIP2= yes
PYTHON_SETUP= ${SETENV} ${MAKE_ENV} ${PYTHON_CMD} setup.py
EXAMPLESDIR= ${PREFIX}/share/examples/${PORTNAME}
do-build:
@ ${PYTHON_CMD} ${PYTHON_LIBDIR}/compileall.py ${WRKSRC}
@ ${PYTHON_CMD} -O ${PYTHON_LIBDIR}/compileall.py ${WRKSRC}
@ cd ${WRKSRC} && ${PYTHON_SETUP} build
pre-install:
@ ${SH} ${PKGREQ} INSTALL
do-install:
@ ${MKDIR} ${MARTEL_DIR}
@ (cd ${WRKSRC} && find *.py *.pyc *.pyo formats test \
| cpio --quiet -pdum -R ${BINOWN}:${BINGRP} ${MARTEL_DIR})
@ cd ${WRKSRC} && ${PYTHON_SETUP} install -c -O1 --prefix=${PREFIX}
post-install:
.if !defined(NOPORTDOCS)
@@ -41,9 +39,8 @@ post-install:
.for docfile in README HISTORY doc/*
@ ${INSTALL_DATA} ${WRKSRC}/${docfile} ${DOCSDIR}
.endfor
@ ${MKDIR} ${EXAMPLESDIR}/builders
@ ${MKDIR} ${EXAMPLESDIR}
@ ${INSTALL_DATA} ${WRKSRC}/examples/* ${EXAMPLESDIR}
@ ${INSTALL_DATA} ${WRKSRC}/builders/* ${EXAMPLESDIR}/builders
.endif
.include <bsd.port.mk>

2
textproc/py-martel/distinfo
View File

@@ -1 +1 @@
MD5 (Martel-0.5.tar.gz) = 97f78433f8b6bfbedcf99d7ca1bc887d
MD5 (Martel-0.6.tar.bz2) = f7d720ff6169c75a588ea4e8e2a8542b

8
textproc/py-martel/pkg-descr
View File

@@ -10,10 +10,8 @@ Biopython - http://www.biopython.org/) where there is often a need to parse
flat and semi-structured legacy file formats. However, it is generally
applicable to the parsing of such files in all fields of endeavour.
More information on Martel may be found in this conference poster:
http://www.biopython.org/~dalke/Martel/BOSC2000.poster/
Author: Andrew Dalke <dalke@acm.org>
WWW: http://www.biopython.org/~dalke/Martel/
Author: Andrew Dalke <dalke@dalkescientific.com>
WWW: http://www.dalkescientific.com/Martel/
See also: http://www.biopython.org/~dalke/Martel/
-- Johann Visagie <wjv@FreeBSD.org>

159
textproc/py-martel/pkg-plist
View File

@@ -3,6 +3,9 @@
%%PORTDOCS%%share/doc/martel/intro.txt
%%PORTDOCS%%share/doc/martel/tech_description.txt
%%PORTDOCS%%share/doc/martel/writing_a_format.txt
%%PORTDOCS%%share/examples/martel/sample.comma
%%PORTDOCS%%share/examples/martel/sample.swissprot
%%PORTDOCS%%share/examples/martel/sample.tab
lib/%%PYTHON_VERSION%%/site-packages/Martel/Expression.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/Expression.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/Expression.pyo
@@ -24,157 +27,15 @@ lib/%%PYTHON_VERSION%%/site-packages/Martel/__init__.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/convert_re.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/convert_re.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/convert_re.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/GenBank.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/GenBank.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/GenBank.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/MDL_10_1996.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/MDL_10_1996.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/MDL_10_1996.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/PDB_2_1.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/PDB_2_1.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/PDB_2_1.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/PIR_3_0.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/PIR_3_0.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/PIR_3_0.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/__init__.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/__init__.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/__init__.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blastall_2_0_10.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blastall_2_0_10.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blastall_2_0_10.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blocks_12.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blocks_12.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blocks_12.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blocksplus.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blocksplus.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/blocksplus.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/embl65.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/embl65.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/embl65.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/enzyme26.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/enzyme26.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/enzyme26.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/primers.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/primers.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/primers.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/prodoc16.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/prodoc16.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/prodoc16.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/prosite16.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/prosite16.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/prosite16.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/swissprot38.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/swissprot38.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/swissprot38.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/taxonomy.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/taxonomy.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/taxonomy.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/trembl14.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/trembl14.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/formats/trembl14.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/msre_constants.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/msre_constants.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/msre_constants.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/msre_parse.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/msre_parse.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/msre_parse.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/optimize.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/optimize.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/optimize.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/sre_constants.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/sre_constants.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/sre_constants.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/sre_parse.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/sre_parse.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/sre_parse.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/__init__.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/__init__.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/__init__.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/support.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/support.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/support.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Expression.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Expression.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Expression.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_GenBank.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_GenBank.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_GenBank.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Generate.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Generate.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Generate.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Iterator.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Iterator.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Iterator.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_MDL_10_1996.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_MDL_10_1996.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_MDL_10_1996.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_PDB_2_1.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_PDB_2_1.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_PDB_2_1.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_PIR_3_0.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_PIR_3_0.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_PIR_3_0.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_ParseRecords.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_ParseRecords.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_ParseRecords.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Parser.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Parser.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_Parser.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_RecordReader.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_RecordReader.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_RecordReader.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_RecordReader2.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_RecordReader2.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_RecordReader2.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blastall_2_0_10.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blastall_2_0_10.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blastall_2_0_10.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blocks_12.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blocks_12.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blocks_12.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blocksplus.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blocksplus.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_blocksplus.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_convert_re.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_convert_re.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_convert_re.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_embl65.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_embl65.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_embl65.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_enzyme26.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_enzyme26.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_enzyme26.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_optimize.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_optimize.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_optimize.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_primers.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_primers.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_primers.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_prodoc16.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_prodoc16.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_prodoc16.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_prosite16.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_prosite16.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_prosite16.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_swissprot38.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_swissprot38.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_swissprot38.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_taxonomy.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_taxonomy.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_taxonomy.pyo
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_trembl14.py
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_trembl14.pyc
lib/%%PYTHON_VERSION%%/site-packages/Martel/test/test_trembl14.pyo
share/examples/martel/README
share/examples/martel/builders/SwissProtBuilder.py
share/examples/martel/builders/SwissProtBuilder.pyc
share/examples/martel/builders/SwissProtBuilder.pyo
share/examples/martel/pdb1plm.ent
share/examples/martel/sample.swissprot
share/examples/martel/swissprot2html.py
share/examples/martel/swissprot2html.pyc
share/examples/martel/swissprot2html.pyo
share/examples/martel/test.mol
share/examples/martel/toxml.py
share/examples/martel/toxml.pyc
share/examples/martel/toxml.pyo
@dirrm share/examples/martel/builders
@dirrm share/examples/martel
@dirrm lib/%%PYTHON_VERSION%%/site-packages/Martel/test
@dirrm lib/%%PYTHON_VERSION%%/site-packages/Martel/formats
@dirrm lib/%%PYTHON_VERSION%%/site-packages/Martel
%%PORTDOCS%%@dirrm share/examples/martel
%%PORTDOCS%%@dirrm share/doc/martel