Date: Fri, 28 Jul 2000 19:00:01 +0200 From: johann@egenetics.com To: FreeBSD-gnats-submit@freebsd.org Subject: ports/20260: New port: biology/py-biopython Message-ID: <E13IDUP-0008RO-00@fling.sanbi.ac.za>
next in thread | raw e-mail | index | archive | help
>Number: 20260 >Category: ports >Synopsis: New port: biology/py-biopython >Confidential: no >Severity: non-critical >Priority: low >Responsible: freebsd-ports >State: open >Quarter: >Keywords: >Date-Required: >Class: change-request >Submitter-Id: current-users >Arrival-Date: Fri Jul 28 10:10:01 PDT 2000 >Closed-Date: >Last-Modified: >Originator: Johann Visagie >Release: FreeBSD 3.5-STABLE i386 >Organization: Electric Genetics / SA National Bioinformatics Institute >Environment: FreeBSD fling.sanbi.ac.za 3.5-STABLE FreeBSD 3.5-STABLE #2: Fri Jul 14 17:30:00 SAST 2000 toor@fling.sanbi.ac.za:/usr/src/sys/compile/FLING i386 >Description: New port of Biopython, a collection of Python modules for use in the field of bioinformatics. >How-To-Repeat: N/A >Fix: # This is a shell archive. Save it in a file, remove anything before # this line, and then unpack it by entering "sh file". Note, it may # create directories; files and directories will be owned by you and # have default permissions. # # This archive contains: # # py-biopython # py-biopython/pkg # py-biopython/pkg/PLIST # py-biopython/pkg/DESCR # py-biopython/pkg/DESCR~ # py-biopython/pkg/COMMENT # py-biopython/Makefile # py-biopython/files # py-biopython/files/md5 # echo c - py-biopython mkdir -p py-biopython > /dev/null 2>&1 echo c - py-biopython/pkg mkdir -p py-biopython/pkg > /dev/null 2>&1 echo x - py-biopython/pkg/PLIST sed 's/^X//' >py-biopython/pkg/PLIST << 'END-of-py-biopython/pkg/PLIST' Xlib/python1.5/site-packages/Bio/__init__.py Xlib/python1.5/site-packages/Bio/ParserSupport.py Xlib/python1.5/site-packages/Bio/Seq.py Xlib/python1.5/site-packages/Bio/Index.py Xlib/python1.5/site-packages/Bio/PropertyManager.py Xlib/python1.5/site-packages/Bio/File.py Xlib/python1.5/site-packages/Bio/Sequence.py Xlib/python1.5/site-packages/Bio/utils.py Xlib/python1.5/site-packages/Bio/SeqRecord.py Xlib/python1.5/site-packages/Bio/SwissProt/__init__.py Xlib/python1.5/site-packages/Bio/SwissProt/KeyWList.py Xlib/python1.5/site-packages/Bio/SwissProt/SProt.py Xlib/python1.5/site-packages/Bio/Blast/__init__.py Xlib/python1.5/site-packages/Bio/Blast/NCBIWWW.py Xlib/python1.5/site-packages/Bio/Blast/Record.py Xlib/python1.5/site-packages/Bio/Blast/NCBIStandalone.py Xlib/python1.5/site-packages/Bio/Enzyme/__init__.py Xlib/python1.5/site-packages/Bio/Enzyme/Enzyme.py Xlib/python1.5/site-packages/Bio/Fasta/__init__.py Xlib/python1.5/site-packages/Bio/Fasta/Fasta.py Xlib/python1.5/site-packages/Bio/PDB/__init__.py Xlib/python1.5/site-packages/Bio/Prosite/__init__.py Xlib/python1.5/site-packages/Bio/Prosite/Prosite.py Xlib/python1.5/site-packages/Bio/Prosite/Pattern.py Xlib/python1.5/site-packages/Bio/Prosite/Prodoc.py Xlib/python1.5/site-packages/Bio/Medline/Medline.py Xlib/python1.5/site-packages/Bio/Medline/PubMed.py Xlib/python1.5/site-packages/Bio/Medline/__init__.py Xlib/python1.5/site-packages/Bio/Data/IUPACData.py Xlib/python1.5/site-packages/Bio/Data/__init__.py Xlib/python1.5/site-packages/Bio/Data/CodonTable.py Xlib/python1.5/site-packages/Bio/Entrez/__init__.py Xlib/python1.5/site-packages/Bio/Tools/mathfns.py Xlib/python1.5/site-packages/Bio/Tools/__init__.py Xlib/python1.5/site-packages/Bio/Tools/Transcribe.py Xlib/python1.5/site-packages/Bio/Tools/listfns.py Xlib/python1.5/site-packages/Bio/Tools/stringfns.py Xlib/python1.5/site-packages/Bio/Tools/Translate.py Xlib/python1.5/site-packages/Bio/Tools/Classification/__init__.py Xlib/python1.5/site-packages/Bio/Tools/Classification/NaiveBayes.py Xlib/python1.5/site-packages/Bio/Tools/Classification/SVM.py Xlib/python1.5/site-packages/Bio/Tools/Classification/kNN.py Xlib/python1.5/site-packages/Bio/WWW/__init__.py Xlib/python1.5/site-packages/Bio/WWW/NCBI.py Xlib/python1.5/site-packages/Bio/WWW/ExPASy.py Xlib/python1.5/site-packages/Bio/WWW/SCOP.py Xlib/python1.5/site-packages/Bio/Alphabet/__init__.py Xlib/python1.5/site-packages/Bio/Alphabet/IUPAC.py Xlib/python1.5/site-packages/Bio/Encodings/IUPACEncoding.py Xlib/python1.5/site-packages/Bio/Encodings/__init__.py Xlib/python1.5/site-packages/Bio/SeqIO/__init__.py Xlib/python1.5/site-packages/Bio/SeqIO/FASTA.py Xlib/python1.5/site-packages/Bio/PDB/__init__.pyc Xlib/python1.5/site-packages/Bio/WWW/__init__.pyc Xlib/python1.5/site-packages/Bio/WWW/NCBI.pyc Xlib/python1.5/site-packages/Bio/WWW/ExPASy.pyc Xlib/python1.5/site-packages/Bio/WWW/SCOP.pyc Xlib/python1.5/site-packages/Bio/Data/IUPACData.pyc Xlib/python1.5/site-packages/Bio/Data/__init__.pyc Xlib/python1.5/site-packages/Bio/Data/CodonTable.pyc Xlib/python1.5/site-packages/Bio/Encodings/IUPACEncoding.pyc Xlib/python1.5/site-packages/Bio/Encodings/__init__.pyc Xlib/python1.5/site-packages/Bio/__init__.pyc Xlib/python1.5/site-packages/Bio/Blast/__init__.pyc Xlib/python1.5/site-packages/Bio/Blast/NCBIWWW.pyc Xlib/python1.5/site-packages/Bio/Blast/Record.pyc Xlib/python1.5/site-packages/Bio/Blast/NCBIStandalone.pyc Xlib/python1.5/site-packages/Bio/SeqIO/__init__.pyc Xlib/python1.5/site-packages/Bio/SeqIO/FASTA.pyc Xlib/python1.5/site-packages/Bio/ParserSupport.pyc Xlib/python1.5/site-packages/Bio/Medline/Medline.pyc Xlib/python1.5/site-packages/Bio/Medline/PubMed.pyc Xlib/python1.5/site-packages/Bio/Medline/__init__.pyc Xlib/python1.5/site-packages/Bio/Tools/mathfns.pyc Xlib/python1.5/site-packages/Bio/Tools/__init__.pyc Xlib/python1.5/site-packages/Bio/Tools/Transcribe.pyc Xlib/python1.5/site-packages/Bio/Tools/listfns.pyc Xlib/python1.5/site-packages/Bio/Tools/stringfns.pyc Xlib/python1.5/site-packages/Bio/Tools/Translate.pyc Xlib/python1.5/site-packages/Bio/Tools/Classification/__init__.pyc Xlib/python1.5/site-packages/Bio/Tools/Classification/NaiveBayes.pyc Xlib/python1.5/site-packages/Bio/Tools/Classification/SVM.pyc Xlib/python1.5/site-packages/Bio/Tools/Classification/kNN.pyc Xlib/python1.5/site-packages/Bio/Seq.pyc Xlib/python1.5/site-packages/Bio/Index.pyc Xlib/python1.5/site-packages/Bio/SwissProt/__init__.pyc Xlib/python1.5/site-packages/Bio/SwissProt/KeyWList.pyc Xlib/python1.5/site-packages/Bio/SwissProt/SProt.pyc Xlib/python1.5/site-packages/Bio/Fasta/__init__.pyc Xlib/python1.5/site-packages/Bio/Fasta/Fasta.pyc Xlib/python1.5/site-packages/Bio/Alphabet/__init__.pyc Xlib/python1.5/site-packages/Bio/Alphabet/IUPAC.pyc Xlib/python1.5/site-packages/Bio/PropertyManager.pyc Xlib/python1.5/site-packages/Bio/File.pyc Xlib/python1.5/site-packages/Bio/Sequence.pyc Xlib/python1.5/site-packages/Bio/utils.pyc Xlib/python1.5/site-packages/Bio/Entrez/__init__.pyc Xlib/python1.5/site-packages/Bio/Enzyme/__init__.pyc Xlib/python1.5/site-packages/Bio/Enzyme/Enzyme.pyc Xlib/python1.5/site-packages/Bio/SeqRecord.pyc Xlib/python1.5/site-packages/Bio/Prosite/__init__.pyc Xlib/python1.5/site-packages/Bio/Prosite/Prosite.pyc Xlib/python1.5/site-packages/Bio/Prosite/Pattern.pyc Xlib/python1.5/site-packages/Bio/Prosite/Prodoc.pyc Xlib/python1.5/site-packages/Bio/Tools/Classification/cSVM.so Xlib/python1.5/site-packages/Bio/Tools/clistfns.so Xlib/python1.5/site-packages/Bio/Tools/cmathfns.so Xlib/python1.5/site-packages/Bio/Tools/cstringfns.so X@dirrm lib/python1.5/site-packages/Bio/WWW X@dirrm lib/python1.5/site-packages/Bio/Tools/Classification X@dirrm lib/python1.5/site-packages/Bio/Tools X@dirrm lib/python1.5/site-packages/Bio/SwissProt X@dirrm lib/python1.5/site-packages/Bio/SeqIO X@dirrm lib/python1.5/site-packages/Bio/Prosite X@dirrm lib/python1.5/site-packages/Bio/PDB X@dirrm lib/python1.5/site-packages/Bio/Medline X@dirrm lib/python1.5/site-packages/Bio/Fasta X@dirrm lib/python1.5/site-packages/Bio/Enzyme X@dirrm lib/python1.5/site-packages/Bio/Entrez X@dirrm lib/python1.5/site-packages/Bio/Encodings X@dirrm lib/python1.5/site-packages/Bio/Data X@dirrm lib/python1.5/site-packages/Bio/Blast X@dirrm lib/python1.5/site-packages/Bio/Alphabet X@dirrm lib/python1.5/site-packages/Bio END-of-py-biopython/pkg/PLIST echo x - py-biopython/pkg/DESCR sed 's/^X//' >py-biopython/pkg/DESCR << 'END-of-py-biopython/pkg/DESCR' XThe Biopython Project is an international association of developers of freely Xavilable Python tools for use in areas of computational molecular biology Xsuch as bioinformatics and genomics. X XBiopython is a collection of Python packages and modules created by the XBiopython Project, intended to provide the basis for building bioinformatics Xapplications in the Python language. It is currently in developer's X(pre-alpha) release. Caveat emptor. X XWWW: http://www.biopython.org/ X X-- Johann Visagie <johann@egenetics.com> END-of-py-biopython/pkg/DESCR echo x - py-biopython/pkg/DESCR~ sed 's/^X//' >py-biopython/pkg/DESCR~ << 'END-of-py-biopython/pkg/DESCR~' XThe Biopython Project is an international association of developers of freely Xavilable Python tools for use in areas of computational molecular biology Xsuch as bioinformatics and genomics. X XBiopython is a collection of Python packages and modules created by the XBiopython Project, intended to provide the basis for building bioinformatics Xapplications in the Python language. It is currently in developer's X(pre-alpha) release. Caveat Emptor. X XWWW: http://www.biopython.org/ X X-- Johann Visagie <johann@egenetics.com> END-of-py-biopython/pkg/DESCR~ echo x - py-biopython/pkg/COMMENT sed 's/^X//' >py-biopython/pkg/COMMENT << 'END-of-py-biopython/pkg/COMMENT' XA collection of Python modules for bioinformatics END-of-py-biopython/pkg/COMMENT echo x - py-biopython/Makefile sed 's/^X//' >py-biopython/Makefile << 'END-of-py-biopython/Makefile' X# New ports collection makefile for: py-biopython X# Date created: 28 July 2000 X# Whom: Johann Visagie <johann@egenetics.com> X# X# $FreeBSD$ X# X XPORTNAME= biopython XPORTVERSION= 0.90.d01 XCATEGORIES= biology python XMASTER_SITES= http://www.biopython.org/Download/ XPKGNAMEPREFIX= py- XDISTNAME= biopython-0.90-d01 X XMAINTAINER= johann@egenetics.com X XBUILD_DEPENDS= python:${PORTSDIR}/lang/python \ X ${LOCALBASE}/lib/python1.5/site-packages/Numeric/Numeric.py:${PORTSDIR}/math/numpy \ X ${LOCALBASE}/lib/python1.5/site-packages/distutils/core.py:${PORTSDIR}/misc/py-distutils X Xdo-build: X @(cd ${WRKSRC}; ${SETENV} ${MAKE_ENV} python setup.py build) X Xdo-install: X @(cd ${WRKSRC}; ${SETENV} ${MAKE_ENV} python setup.py install) X X.include <bsd.port.mk> END-of-py-biopython/Makefile echo c - py-biopython/files mkdir -p py-biopython/files > /dev/null 2>&1 echo x - py-biopython/files/md5 sed 's/^X//' >py-biopython/files/md5 << 'END-of-py-biopython/files/md5' XMD5 (biopython-0.90-d01.tar.gz) = 14ccfee8ca4f42ea963a2205b2c631c1 END-of-py-biopython/files/md5 exit >Release-Note: >Audit-Trail: >Unformatted: To Unsubscribe: send mail to majordomo@FreeBSD.org with "unsubscribe freebsd-ports" in the body of the message
Want to link to this message? Use this URL: <https://mail-archive.FreeBSD.org/cgi/mid.cgi?E13IDUP-0008RO-00>