Daemon Power

The NetBSD Packages Collection: biology/bioperl

Brief description of the package:
Perl tools for computational molecular biology

Please read the file "DESCR" for a longer description, or browse the package's history.

This package has a home page at http://www.bioperl.org/.

Please note that this package has a gnu-gpl-v2 license.

The package is located in the "biology/bioperl" directory. The current source version of the package is "bioperl-1.007001". For a summary on how to use the package collection, go to the top of the packages tree.

Problem reports, updates or suggestions for this package should be reported with send-pr.

The following security vulnerabilities are known for biology/bioperl :

If you have a vulnerable package installed on any machine, you are advised to remove the package immediately, using the standard package tools. The pkg_admin audit command locates any installed package which has been mentioned in security advisories as being vulnerable.

This package requires the following package(s) to build: p5-Algorithm-Munkres-[0-9]* perl>=5.26.0 cwrappers>=20150314 perl<5.28.0 p5-Array-Compare-[0-9]* p5-Moose-[0-9]* p5-Class-Load>=0.09 p5-Data-OptList-[0-9]* p5-Params-Util>=0.14 p5-Sub-Install>=0.921 p5-Module-Implementation>=0.04 p5-Module-Runtime>=0.12 p5-Module-Build>=0.42050 p5-inc-latest-[0-9]* p5-CPAN-Meta>=2.142060 p5-Scalar-List-Utils>=1.33 p5-Try-Tiny-[0-9]* p5-Capture-Tiny>=0.12 p5-Inline-C-[0-9]* p5-Inline>=0.58 p5-Parse-RecDescent>=1.80 p5-Text-Balanced-[0-9]* p5-Test-Warn>=0.21 p5-Sub-Uplevel>=0.12 p5-File-ShareDir-Install-[0-9]* p5-Pegex>=0.55 p5-YAML-LibYAML-[0-9]* p5-File-Copy-Recursive-[0-9]* p5-IO-All-[0-9]* p5-File-MimeInfo-[0-9]* p5-File-BaseDir-[0-9]* p5-IPC-System-Simple-[0-9]* xdg-user-dirs-[0-9]* libxslt-[0-9]* libgcrypt>=1.2.0 libgpg-error>=1.13 libgpg-error>=0.6 libgpg-error>=1.10nb1 libxml2>=2.6.27 xmlcatmgr>=2.0beta1 libxml2>=2.6.2 libgcrypt>=1.6.0 libxml2>=2.8.0nb2 docbook-xml-[0-9]* docbook-xsl-[0-9]* 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This package requires the following package(s) to run: p5-Algorithm-Munkres-[0-9]* perl>=5.26.0 perl<5.28.0 p5-Array-Compare-[0-9]* p5-Moose-[0-9]* p5-Class-Load>=0.09 p5-Data-OptList-[0-9]* p5-Params-Util>=0.14 p5-Sub-Install>=0.921 p5-Module-Implementation>=0.04 p5-Module-Runtime>=0.12 p5-Try-Tiny-[0-9]* p5-Module-Runtime>=0.012 p5-Package-Stash>=0.32 p5-Dist-CheckConflicts>=0.02 p5-Module-Runtime-[0-9]* p5-Sub-Exporter-[0-9]* p5-Data-OptList>=0.100 p5-Sub-Install>=0.920 p5-Test-Fatal-[0-9]* p5-Try-Tiny>=0.07 p5-Module-Implementation>=0.06 p5-Package-Stash-XS>=0.26 p5-Class-Load-XS>=0.01 p5-Class-Load>=0.15 p5-Data-OptList>=0.107 p5-Devel-GlobalDestruction>=0 p5-Sub-Exporter-Progressive>=0.001011 p5-Devel-OverloadInfo>=0.004 p5-MRO-Compat>=0 p5-Sub-Identify>=0 p5-Devel-StackTrace>=1.33 p5-Eval-Closure>=0.04 p5-Module-Runtime>=0.014 p5-Module-Runtime-Conflicts>=0.002 p5-Dist-CheckConflicts-[0-9]* p5-MRO-Compat>=0.05 p5-Package-Stash-XS>=0.24 p5-Params-Util>=1.00 p5-Sub-Exporter>=0.980 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MesaLib>=3.4.2 libXdamage>=1.0.3 libdrm>=2.4.60 libdrm>=2.4.15 libva>=1.0.6 libvdpau>=0.3 libLLVM>=4.0 libLLVM>=4.0.0 libxcb>=1.6 libXdmcp>=0.99 libXau>=1.0 lzo>=2.01 fontconfig>=2.2.95 freetype2>=2.1.9 pixman>=0.30.0 pixman>=0.25.2 MesaLib>=7.11.2 cairo>=1.0.0nb2 cairo-gobject>=1.10.2 cairo>=1.14.2nb1 glib2>=2.14.0 Xft2>=2.1.7nb6 harfbuzz>=1.4.2nb1 cairo-gobject>=1.14.2nb1 pango>=1.6.0 cairo>=1.6.0 shared-mime-info>=1.0nb1 atk>=2.6.0 gdk-pixbuf2>=2.34.0nb1 xcursor>=1.1.2nb1 Xrandr>=1.0.2nb3 pango>=1.40.3nb2 lua52>=5.2.0<5.3 tk>=8.5.7 tcl>=8.5.7 sqlite3>=3.13.0 sqlite3>=3.0.8 sqlite3>=3.18.0nb1 tcl>=8.6.1nb1 libltdl>=2.4.2 gts>=0.7.6 netpbm>=10.11.6 jasper>=1.600.0 jasper>=1.900.1nb7 netpbm>=10.35.80nb6 gtk2+>=2.24.31nb2 tk>=8.6.1 libltdl>=2.2.6 p5-HTML-Parser>=3 p5-HTML-Tagset>=3.0 p5-URI-[0-9]* p5-Business-ISBN-[0-9]* p5-Business-ISBN-Data>=20140910.002 p5-HTML-TableExtract-[0-9]* p5-HTML-Parser>=3.08 p5-HTML-Tree>=3.18 p5-HTML-Parser>=3.46 p5-HTML-Tagset>=3.02 p5-HTML-Element-Extended>=1.16 p5-HTML-Tree>=0 p5-List-MoreUtils-[0-9]* p5-PostScript-[0-9]* p5-SOAP-Lite-[0-9]* p5-Class-Inspector-[0-9]* p5-IO-SessionData>=1.03 p5-IO-Socket-SSL>=0 p5-IO-Socket-INET6-[0-9]* p5-Socket6>=0.12 p5-Net-LibIDN-[0-9]* libidn>=0.4.6 libidn>=1.20nb1 p5-Net-SSLeay>=1.59 p5-Mozilla-CA-[0-9]* p5-LWP-Protocol-https>=0 p5-IO-Socket-SSL>=1.38 p5-Mozilla-CA>=20110101 p5-MIME-tools>=0 p5-IO-stringy-[0-9]* p5-MailTools-[0-9]* p5-TimeDate-[0-9]* p5-Convert-BinHex-[0-9]* p5-XML-Parser>=2.23 p5-libwww>=0 p5-Encode-Locale>=0 p5-File-Listing>=6 p5-HTTP-Date>=6.00 p5-HTTP-Cookies>=6 p5-HTTP-Message>=6.02 p5-HTML-Parser>=3.33 p5-HTTP-Date>=6 p5-Encode-Locale>=1.02 p5-LWP-MediaTypes>=6.01 p5-IO-HTML-[0-9]* p5-HTTP-Daemon>=6 p5-HTTP-Negotiate>=6 p5-HTTP-Message>=6 p5-LWP-MediaTypes>=6 p5-Net-HTTP>=6.07 p5-URI>=1.10 p5-WWW-RobotRules>=6.01 p5-URI>=1.27 p5-LWP-Protocol-https>=6.02 p5-Crypt-SSLeay>=0 p5-Path-Class>=0.26 p5-Try-Tiny>=0.19 p5-HTML-Tagset-[0-9]* p5-IO-Socket-SSL-[0-9]* p5-SVG-Graph>=0.01 p5-Math-Derivative-[0-9]* p5-Math-Spline-[0-9]* p5-Statistics-Descriptive-[0-9]* p5-List-MoreUtils>=0 p5-Tree-DAG_Node-[0-9]* p5-File-Slurp-Tiny>=0 p5-SVG>=2.26 p5-Set-Scalar-[0-9]* p5-Sort-Naturally-[0-9]* p5-Spreadsheet-ParseExcel-[0-9]* p5-Crypt-RC4-[0-9]* p5-Digest-Perl-MD5-[0-9]* p5-OLE-Storage_Lite>=0.19 p5-IO-stringy>=2.101 p5-IO-stringy>=0 p5-XML-Parser-[0-9]* p5-XML-SAX-Writer-[0-9]* p5-XML-NamespaceSupport>=1.00 p5-XML-Filter-BufferText>=1.00 p5-XML-SAX>=0.04 p5-XML-SAX>=0.15 p5-XML-Simple-[0-9]* p5-XML-SAX-[0-9]* p5-XML-SAX-Expat-[0-9]* p5-XML-SAX>=0.03 p5-XML-Parser>=2.27 p5-XML-NamespaceSupport>=1.04 p5-XML-Twig-[0-9]* p5-XML-Writer>=0.4 p5-YAML-[0-9]* p5-libwww-[0-9]* p5-libxml-[0-9]* p5-XML-Parser>=2.29 p5-XML-DOM>=0 p5-XML-Parser>=2.30 p5-XML-RegExp-[0-9]* .

This package supports the following build-time options:

mysql
Enable MySQL support.
pgsql
Enable PostgreSQL support.
sqlite
Enable SQLite support.

Select one of the links below to download the package in precompiled binary form for installation with pkg_add(1). Available machine architectures and package versions:
earm:bioperl-1.6.924nb1.tgz(NetBSD 7.0)
earm:bioperl-1.6.924nb1.tgz(NetBSD 7.0)
earmv6hf:bioperl-1.6.924.tgz(NetBSD 7.0)
earmv7hf:bioperl-1.6.924nb1.tgz(NetBSD 7.0)
earmv7hf:bioperl-1.6.924nb1.tgz(NetBSD 7.99.21)
i386:bioperl-1.6.924nb1.tgz(NetBSD 6.0)
i386:bioperl-1.6.924nb1.tgz(NetBSD 6.0)
i386:bioperl-1.6.924nb2.tgz(NetBSD 6.0)
i386:bioperl-1.007001.tgz(NetBSD 7.0)
i386:bioperl-1.6.924nb1.tgz(NetBSD 7.0.0_PATCH)
i386:bioperl-1.6.924nb1.tgz(NetBSD 7.0)
i386:bioperl-1.6.924nb2.tgz(NetBSD 7.0)
i386:bioperl-1.007001.tgz(NetBSD 7.0)
i386:bioperl-0.7.0nb5.tgz(QNX 6.5.0)
powerpc:bioperl-1.6.924nb2.tgz(NetBSD 6.0)
powerpc:bioperl-1.6.924nb1.tgz(NetBSD 6.0)
powerpc:bioperl-1.007001.tgz(NetBSD 6.1)
powerpc:bioperl-1.6.924nb1.tgz(NetBSD 7.0)
sparc64:bioperl-1.6.923.tgz(NetBSD 6.1_STABLE)
x86_64:bioperl-1.6.924nb1.tgz(NetBSD 6.0)
x86_64:bioperl-1.6.924nb1.tgz(NetBSD 6.0)
x86_64:bioperl-1.6.924nb2.tgz(NetBSD 6.0)
x86_64:bioperl-1.6.924nb1.tgz(NetBSD 6.1)
x86_64:bioperl-1.6.924nb2.tgz(NetBSD 6.1)
x86_64:bioperl-1.007001.tgz(NetBSD 7.0)
x86_64:bioperl-1.6.924nb1.tgz(NetBSD 7.0.0_PATCH)
x86_64:bioperl-1.6.924nb1.tgz(NetBSD 7.0)
x86_64:bioperl-1.6.924nb2.tgz(NetBSD 7.0)
x86_64:bioperl-1.007001.tgz(NetBSD 7.0)
x86_64:bioperl-1.007001.tgz(NetBSD 7.0.1_PATCH)

The NetBSD packages collection is designed to permit easy installation from source - particularly useful if the latest binary package is not available for your chosen platform.


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