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Port details on branch 2022Q3
p5-Bio-DB-NCBIHelper Collection of routines useful for queries to NCBI databases
1.7.8 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 View this port on Repology. pkg-fallout 1.7.8Version of this port present on the latest quarterly branch.
Maintainer: sunpoet@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2019-12-08 16:52:43
Last Update: 2023-12-25 08:59:52
Commit Hash: 4107132
Also Listed In: perl5
License: ART10 GPLv1+
WWW:
https://metacpan.org/release/Bio-DB-NCBIHelper
Description:
Bio::DB::NCBIHelper provides a single place to setup some common methods for querying NCBI web databases. This module just centralizes the methods for constructing a URL for querying NCBI GenBank and NCBI GenPept and the common HTML stripping done in postprocess_data().
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (25 items)
Collapse this list.
  1. /usr/local/share/licenses/p5-Bio-DB-NCBIHelper-1.7.8/catalog.mk
  2. /usr/local/share/licenses/p5-Bio-DB-NCBIHelper-1.7.8/LICENSE
  3. /usr/local/share/licenses/p5-Bio-DB-NCBIHelper-1.7.8/ART10
  4. /usr/local/share/licenses/p5-Bio-DB-NCBIHelper-1.7.8/GPLv1+
  5. bin/bp_biofetch_genbank_proxy
  6. bin/bp_download_query_genbank
  7. bin/bp_query_entrez_taxa
  8. lib/perl5/site_perl/Bio/DB/EntrezGene.pm
  9. lib/perl5/site_perl/Bio/DB/GenBank.pm
  10. lib/perl5/site_perl/Bio/DB/GenPept.pm
  11. lib/perl5/site_perl/Bio/DB/NCBIHelper.pm
  12. lib/perl5/site_perl/Bio/DB/Query/GenBank.pm
  13. lib/perl5/site_perl/Bio/DB/Taxonomy/entrez.pm
  14. lib/perl5/site_perl/man/man1/bp_biofetch_genbank_proxy.1.gz
  15. lib/perl5/site_perl/man/man1/bp_download_query_genbank.1.gz
  16. lib/perl5/site_perl/man/man1/bp_query_entrez_taxa.1.gz
  17. lib/perl5/site_perl/man/man3/Bio::DB::EntrezGene.3.gz
  18. lib/perl5/site_perl/man/man3/Bio::DB::GenBank.3.gz
  19. lib/perl5/site_perl/man/man3/Bio::DB::GenPept.3.gz
  20. lib/perl5/site_perl/man/man3/Bio::DB::NCBIHelper.3.gz
  21. lib/perl5/site_perl/man/man3/Bio::DB::Query::GenBank.3.gz
  22. lib/perl5/site_perl/man/man3/Bio::DB::Taxonomy::entrez.3.gz
  23. @owner
  24. @group
  25. @mode
Collapse this list.
Dependency lines:
  • p5-Bio-DB-NCBIHelper>0:biology/p5-Bio-DB-NCBIHelper
To install the port:
cd /usr/ports/biology/p5-Bio-DB-NCBIHelper/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/p5-Bio-DB-NCBIHelper
  • pkg install p5-Bio-DB-NCBIHelper
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: p5-Bio-DB-NCBIHelper
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1703227832 SHA256 (Bio-DB-NCBIHelper-1.7.8.tar.gz) = f8e2a739c872608a24003a642a686b6e9c72af59a3bc0aceea6e5a5c2ea5ecbf SIZE (Bio-DB-NCBIHelper-1.7.8.tar.gz) = 45770
Packages (timestamps in pop-ups are UTC):
p5-Bio-DB-NCBIHelper
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest1.7.81.7.81.7.61.7.81.7.8-1.7.6-
FreeBSD:13:quarterly1.7.81.7.81.7.71.7.81.7.81.7.81.7.81.7.8
FreeBSD:14:latest1.7.81.7.81.7.71.7.81.7.81.7.7-1.7.7
FreeBSD:14:quarterly1.7.81.7.8-1.7.81.7.81.7.81.7.81.7.8
FreeBSD:15:latest1.7.81.7.8n/a1.7.8n/a1.7.81.7.81.7.8
FreeBSD:15:quarterly--n/a-n/a---
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. p5-Bio-ASN1-EntrezGene>=0 : biology/p5-Bio-ASN1-EntrezGene
  2. p5-BioPerl>=1.007007 : biology/p5-BioPerl
  3. p5-CGI>=0 : www/p5-CGI
  4. p5-Cache-Cache>=0 : devel/p5-Cache-Cache
  5. p5-HTTP-Message>=0 : www/p5-HTTP-Message
  6. p5-LWP-Protocol-https>=0 : www/p5-LWP-Protocol-https
  7. p5-URI>=0 : net/p5-URI
  8. p5-XML-Twig>=0 : textproc/p5-XML-Twig
  9. p5-libwww>=0 : www/p5-libwww
  10. perl5>=5.36<5.37 : lang/perl5.36
  11. perl5>=5.36<5.37 : lang/perl5.36
Test dependencies:
  1. p5-Test-Exception>=0 : devel/p5-Test-Exception
  2. p5-Test-Most>=0 : devel/p5-Test-Most
  3. p5-Test-RequiresInternet>=0 : devel/p5-Test-RequiresInternet
Runtime dependencies:
  1. p5-Bio-ASN1-EntrezGene>=0 : biology/p5-Bio-ASN1-EntrezGene
  2. p5-BioPerl>=1.007007 : biology/p5-BioPerl
  3. p5-CGI>=0 : www/p5-CGI
  4. p5-Cache-Cache>=0 : devel/p5-Cache-Cache
  5. p5-HTTP-Message>=0 : www/p5-HTTP-Message
  6. p5-LWP-Protocol-https>=0 : www/p5-LWP-Protocol-https
  7. p5-URI>=0 : net/p5-URI
  8. p5-XML-Twig>=0 : textproc/p5-XML-Twig
  9. p5-libwww>=0 : www/p5-libwww
  10. perl5>=5.36<5.37 : lang/perl5.36
There are no ports dependent upon this port
Configuration Options:
No options to configure
Options name:
biology_p5-Bio-DB-NCBIHelper
USES:
perl5
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (12 items)
Collapse this list.
  1. ftp://ftp.auckland.ac.nz/pub/perl/CPAN/modules/by-module/Bio/
  2. ftp://ftp.cpan.org/pub/CPAN/modules/by-module/
  3. ftp://ftp.cpan.org/pub/CPAN/modules/by-module/Bio/
  4. ftp://ftp.funet.fi/pub/languages/perl/CPAN/modules/by-module/Bio/
  5. ftp://ftp.kddlabs.co.jp/lang/perl/CPAN/modules/by-module/Bio/
  6. ftp://ftp.mirrorservice.org/sites/cpan.perl.org/CPAN/modules/by-module/Bio/
  7. http://backpan.perl.org/modules/by-module/Bio/
  8. http://ftp.jaist.ac.jp/pub/CPAN/modules/by-module/Bio/
  9. http://ftp.twaren.net/Unix/Lang/CPAN/modules/by-module/Bio/
  10. https://cpan.metacpan.org/modules/by-module/
  11. https://cpan.metacpan.org/modules/by-module/Bio/
  12. https://www.cpan.org/modules/by-module/Bio/
Collapse this list.

There are no commits on branch 2022Q3 for this port
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