Port details |
- ncbi-entrez-direct Access to the NCBI's suite of interconnected databases
- 14.9.20210423_24 biology =2 14.9.20210423_24Version of this port present on the latest quarterly branch.
- Maintainer: jwb@FreeBSD.org
- Port Added: 2021-04-24 23:42:15
- Last Update: 2024-08-09 06:24:08
- Commit Hash: aa8c011
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: perl5
- License: PD
- WWW:
- https://www.ncbi.nlm.nih.gov/books/NBK179288/
- Description:
- Entrez Direct (EDirect) provides access to the NCBI's suite of interconnected
databases (publication, sequence, structure, gene, variation, expression, etc.)
from a UNIX terminal window.
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- ncbi-entrez-direct>0:biology/ncbi-entrez-direct
- Conflicts:
- CONFLICTS_INSTALL:
- ebook-tools
- p5-XML-Compile
- To install the port:
- cd /usr/ports/biology/ncbi-entrez-direct/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/ncbi-entrez-direct
- pkg install ncbi-entrez-direct
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: ncbi-entrez-direct
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1678294976
SHA256 (edirect-14.9.20210423/edirect.tar.gz) = 9d6534226164fc5dfae7abcf25bfdbd08db068b27f1c13b8a3c4681cda5b0cea
SIZE (edirect-14.9.20210423/edirect.tar.gz) = 829737
No package information for this port in our database- Sometimes this happens. Not all ports have packages. Perhaps there is a build error. Check the fallout link:
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- bash : shells/bash
- go121 : lang/go121
- perl5>=5.36<5.37 : lang/perl5.36
- Runtime dependencies:
-
- p5-libwww>=0 : www/p5-libwww
- p5-LWP-Protocol-https>=0 : www/p5-LWP-Protocol-https
- p5-XML-Simple>=0 : textproc/p5-XML-Simple
- curl : ftp/curl
- perl5>=5.36<5.37 : lang/perl5.36
- This port is required by:
- for Run
-
- biology/biostar-tools
Configuration Options:
- No options to configure
- Options name:
- biology_ncbi-entrez-direct
- USES:
- go:modules perl5 shebangfix
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
Commit | Credits | Log message |
14.9.20210423_24 09 Aug 2024 06:24:08 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update |
14.9.20210423_23 03 Jul 2024 08:29:54 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update |
14.9.20210423_22 15 Jun 2024 09:52:17 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update
MFH: 2024Q2 |
14.9.20210423_21 13 May 2024 17:56:04 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update
MFH: 2024Q2 |
14.9.20210423_20 15 Apr 2024 08:20:04 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update
MFH: 2024Q2 |
14.9.20210423_19 24 Mar 2024 14:29:00 |
Muhammad Moinur Rahman (bofh) |
lang/go: Change DEFAULT to 1.21
PR: 277776
Approved by: portmgr (exp-run) |
14.9.20210423_18 11 Feb 2024 10:39:17 |
Ashish SHUKLA (ashish) |
all: Bump PORTREVISION after lang/go* update
PR: 276530 |
14.9.20210423_17 07 Dec 2023 02:22:10 |
Ashish SHUKLA (ashish) |
all: Bump PORTREVISION after lang/go* update
PR: 274405 |
14.9.20210423_16 08 Sep 2023 14:34:56 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go* update |
14.9.20210423_15 04 Aug 2023 14:24:50 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{119,120} update |
14.9.20210423_14 08 Apr 2023 15:13:25 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{119,120} update |
14.9.20210423_13 11 Mar 2023 08:34:45 |
Robert Clausecker (fuz) |
biology/ncbi-entrez-direct: fix build on riscv64
Bump golang.org/x/sys dependency to a version new
enough to build on riscv64-freebsd.
Sponsored by: Berliner Linux User Group e.V.
Approved by: portmgr (build fix blanket)
Differential Revision: https://reviews.freebsd.org/D38996 |
14.9.20210423_12 09 Mar 2023 19:18:07 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after Go ports update |
14.9.20210423_11 15 Feb 2023 19:06:01 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{119,120} update |
14.9.20210423_10 09 Feb 2023 21:55:23 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after GO_DEFAULT update. |
14.9.20210423_9 14 Jan 2023 11:31:17 |
Dmitri Goutnik (dmgk) |
all: Bump PORTVERSION after lang/go{118,119} update |
14.9.20210423_8 11 Dec 2022 11:17:27 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{118,119} update |
14.9.20210423_7 06 Oct 2022 19:24:26 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{118,119} update |
14.9.20210423_6 08 Sep 2022 16:33:18 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{118,119} update |
07 Sep 2022 21:58:51 |
Stefan Eßer (se) |
Remove WWW entries moved into port Makefiles
Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner) |
14.9.20210423_5 07 Sep 2022 21:10:59 |
Stefan Eßer (se) |
Add WWW entries to port Makefiles
It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.
Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.
There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above ) |
14.9.20210423_5 07 Sep 2022 10:26:41 |
Tobias C. Berner (tcberner) |
cleanup: remove trailing whitepaces |
14.9.20210423_5 03 Aug 2022 21:35:13 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after Go update
Bump Go ports PORTREVISION after GO_DEFAULT and lang/go118 update. |
14.9.20210423_4 14 Jul 2022 12:46:05 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{117,118} update |
14.9.20210423_3 07 Jun 2022 21:56:10 |
Dmitri Goutnik (dmgk) |
*/*: Bump port revisons after lang/go{117,118} update |
14.9.20210423_2 06 Jun 2022 18:19:10 |
Dmitri Goutnik (dmgk) |
*/*: Repair after switching to versioned Go ports
- Add 1.17 to USES=go for ports that still need go117, remove GO_PORT;
- Add missing ${SETENV} ${MAKE_ENV} to repair BINARY_ALIAS;
- Remove explicit dependencies on lang/go.
PR: 264336
Reviewed by: ygy jwb yuri mikael drtr0jan@yandex.ru decke mat
Differential Revision: https://reviews.freebsd.org/D35346 |
14.9.20210423_2 30 Mar 2022 07:01:44 |
Guangyuan Yang (ygy) |
*/*: Bump PORTREVISION after lang/go 1.18 update |
14.9.20210423_1 06 Feb 2022 18:36:07 |
Stefan Eßer (se) |
Update CONFLICTS definitions in categories a* to c*
Update the CONFLICTS definitions of ports in the following categories:
- accessibility
- archivers
- audio
- benchmarks
- biology
- cad
- chinese
- comms
- converters
An attempt has been made to use generic conflicts patterns that do not
have to be updated whenever a new version of a conflicting port is
added to the ports system.
There is a misunderstanding that the port being built/installed has to
be omitted from the conflicts pattern. This is not true - the port
being built is implicitly non-conflicting due to logic in bsd.port.mk.
Approved by: portmgr (implicit) |
14.9.20210423_1 10 Jan 2022 15:15:39 |
Stefan Eßer (se) |
Fix CONFLICTS entries of multiple ports
There have been lots of missing CONFLICTS_INSTALL entries, either
because conflicting ports were added without updating existing ports,
due to name changes of generated packages, due to mis-understanding
the format and semantics of the conflicts entries, or just due to
typoes in package names.
This patch is the result of a comparison of all files contained in
the official packages with each other. This comparison was based on
packages built with default options and may therefore have missed
further conflicts with optionally installed files.
Where possible, version numbers in conflicts entries have been
generalized, some times taking advantage of the fact that a port (Only the first 15 lines of the commit message are shown above ) |
14.9.20210423_1 26 Apr 2021 16:53:11 |
Jason W. Bacon (jwb) |
biology/ncbi-entrez-direct: Update to 14.9.20210423_1
A few fixes to pass upstream test script |
14.9.20210423 24 Apr 2021 23:40:16 |
Jason W. Bacon (jwb) |
biology/ncbi-entrez-direct: Access to the NCBI's interconnected databases
Entrez Direct (EDirect) provides access to the NCBI's suite of interconnected
databases (publication, sequence, structure, gene, variation, expression, etc.)
from a UNIX terminal window. |