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We just rebooted with several updates: * new HMTLify code * no port maintainer is now highly visible (e.g. https://freshports.org/security/sssd/) * fixed search logic error when using plain/ text details at https://github.com/FreshPorts/freshports/releases/tag/2.2.34
Port details
checkm Quality assessment tool for the microbial genomes
1.2.0 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 Version of this port present on the latest quarterly branch.
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2018-12-07 00:26:14
Last Update: 2022-09-07 21:58:51
Commit Hash: fb16dfe
Also Listed In: python
License: GPLv3
Description:
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb
pkg-plist: as obtained via: make generate-plist
Expand this list (3 items)
Collapse this list.
  1. /usr/local/share/licenses/CheckM-1.2.0/catalog.mk
  2. /usr/local/share/licenses/CheckM-1.2.0/LICENSE
  3. /usr/local/share/licenses/CheckM-1.2.0/GPLv3
Collapse this list.
Dependency lines:
  • CheckM>0:biology/checkm
To install the port:
cd /usr/ports/biology/checkm/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/checkm
  • pkg install CheckM
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: CheckM
Flavors: there is no flavor information for this port.
distinfo:

Packages (timestamps in pop-ups are UTC):
CheckM
ABIlatestquarterly
FreeBSD:11:aarch64pkg-fallout1.0.18
FreeBSD:11:amd641.0.181.0.18
FreeBSD:11:armv6pkg-falloutpkg-fallout
FreeBSD:11:i3861.0.181.0.18
FreeBSD:11:mipspkg-falloutpkg-fallout
FreeBSD:11:mips64pkg-falloutpkg-fallout
FreeBSD:12:aarch64pkg-fallout1.2.0
FreeBSD:12:amd641.2.01.2.0
FreeBSD:12:armv6pkg-falloutpkg-fallout
FreeBSD:12:armv7pkg-falloutpkg-fallout
FreeBSD:12:i3861.2.01.2.0
FreeBSD:12:mipspkg-falloutpkg-fallout
FreeBSD:12:mips64pkg-falloutpkg-fallout
FreeBSD:12:powerpc64pkg-fallout1.0.18
FreeBSD:13:aarch641.2.01.2.0
FreeBSD:13:amd641.2.01.2.0
FreeBSD:13:armv6pkg-falloutpkg-fallout
FreeBSD:13:armv7pkg-falloutpkg-fallout
FreeBSD:13:i3861.2.01.2.0
FreeBSD:13:mipspkg-falloutpkg-fallout
FreeBSD:13:mips64pkg-falloutpkg-fallout
FreeBSD:13:powerpc64pkg-fallout1.2.0
FreeBSD:13:riscv64pkg-falloutpkg-fallout
FreeBSD:14:aarch641.2.0pkg-fallout
FreeBSD:14:amd641.2.0pkg-fallout
FreeBSD:14:armv6pkg-falloutpkg-fallout
FreeBSD:14:armv7pkg-falloutpkg-fallout
FreeBSD:14:i3861.2.0pkg-fallout
FreeBSD:14:mipspkg-falloutpkg-fallout
FreeBSD:14:mips64pkg-falloutpkg-fallout
FreeBSD:14:powerpc64pkg-falloutpkg-fallout
FreeBSD:14:riscv64pkg-falloutpkg-fallout
 
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. py39-setuptools>=63.1.0 : devel/py-setuptools@py39
  2. python3.9 : lang/python39
Runtime dependencies:
  1. py39-numpy>=1.16,1<1.24,1 : math/py-numpy@py39
  2. py39-DendroPy>0 : science/py-DendroPy@py39
  3. py39-matplotlib>0 : math/py-matplotlib@py39
  4. py39-pysam>0 : biology/py-pysam@py39
  5. py39-scipy>0 : science/py-scipy@py39
  6. py39-setuptools>=63.1.0 : devel/py-setuptools@py39
  7. python3.9 : lang/python39
There are no ports dependent upon this port

Configuration Options:
Options name:
USES:
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/Ecogenomics/CheckM/tar.gz/v1.2.0?dummy=/
Collapse this list.

Number of commits found: 20

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
07 Sep 2022 21:58:51
commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
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)
1.2.0
07 Sep 2022 21:10:59
commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
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 View all of this commit message)
1.2.0
01 May 2022 18:14:09
commit hash:dda16bd48503ae87f3a8d7840b893a04aecc87d7commit hash:dda16bd48503ae87f3a8d7840b893a04aecc87d7commit hash:dda16bd48503ae87f3a8d7840b893a04aecc87d7commit hash:dda16bd48503ae87f3a8d7840b893a04aecc87d7 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/checkm: Update 1.1.11 -> 1.2.0

Reported by:	portscout
1.1.11
25 Apr 2022 20:50:10
commit hash:088dbf75b83582549a0131b2b83ab5eea3039232commit hash:088dbf75b83582549a0131b2b83ab5eea3039232commit hash:088dbf75b83582549a0131b2b83ab5eea3039232commit hash:088dbf75b83582549a0131b2b83ab5eea3039232 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/checkm: Update 1.1.10 -> 1.1.11

Reported by:	portscout
1.1.10
22 Apr 2022 18:04:37
commit hash:d0a1dad5c44f9a34aab26c3e70a8c82e5ccfde71commit hash:d0a1dad5c44f9a34aab26c3e70a8c82e5ccfde71commit hash:d0a1dad5c44f9a34aab26c3e70a8c82e5ccfde71commit hash:d0a1dad5c44f9a34aab26c3e70a8c82e5ccfde71 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/checkm: Update 1.1.9 -> 1.1.10

Reported by:	portscout
1.1.9
15 Apr 2022 19:09:58
commit hash:f7875ce1de3c8e5e62fbc812436c87b7e92eee08commit hash:f7875ce1de3c8e5e62fbc812436c87b7e92eee08commit hash:f7875ce1de3c8e5e62fbc812436c87b7e92eee08commit hash:f7875ce1de3c8e5e62fbc812436c87b7e92eee08 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/checkm: Update 1.1.8 -> 1.1.9

Reported by:	portscout
1.1.8
12 Apr 2022 03:22:30
commit hash:350d96226d1bcf56747c37a3ba7e33564fc42f69commit hash:350d96226d1bcf56747c37a3ba7e33564fc42f69commit hash:350d96226d1bcf56747c37a3ba7e33564fc42f69commit hash:350d96226d1bcf56747c37a3ba7e33564fc42f69 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/checkm: Update 1.0.18 -> 1.1.8

Reported by:	portscout
1.0.18
25 Mar 2022 13:38:04
commit hash:c750cbac580143e48a23ed5af71ac671614b8015commit hash:c750cbac580143e48a23ed5af71ac671614b8015commit hash:c750cbac580143e48a23ed5af71ac671614b8015commit hash:c750cbac580143e48a23ed5af71ac671614b8015 files touched by this commit
Po-Chuan Hsieh (sunpoet) search for other commits by this committer
biology/checkm: Fix build with setuptools 58.0.0+

With hat:	python
1.0.18
10 May 2021 20:13:20
commit hash:1d44af58980136b882d146f21d8776943a14c5ebcommit hash:1d44af58980136b882d146f21d8776943a14c5ebcommit hash:1d44af58980136b882d146f21d8776943a14c5ebcommit hash:1d44af58980136b882d146f21d8776943a14c5eb files touched by this commit
Thierry Thomas (thierry) search for other commits by this committer
math/py-matplotlib: chase minimum Python version in dependent ports

Since the previous update changed USES=python from 3.6+ to 3.7+, all
dependent ports must have USES=python:3.7+ as well, otherwise it breaks
the @py36 flavor.

PR:		255347
Reported by:	sunpoet
1.0.18
07 Apr 2021 08:09:01
commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
1.0.18
06 Apr 2021 14:31:07
commit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
1.0.18
24 Dec 2020 09:03:39
Revision:559053Original commit files touched by this commit
antoine search for other commits by this committer
scipy 1.5.4 is only compatible with python 3.6+

Reported by:	pkg-fallout
1.0.18
19 Aug 2019 08:25:29
Revision:509260Original commit files touched by this commit
yuri search for other commits by this committer
biology/checkm: Update 1.0.17 -> 1.0.18

Reported by:	portscout
1.0.17
11 Aug 2019 19:16:49
Revision:508667Original commit files touched by this commit
yuri search for other commits by this committer
biology/checkm: Update 1.0.16 -> 1.0.17

Reported by:	portscout
1.0.16
09 Aug 2019 07:22:48
Revision:508421Original commit files touched by this commit
yuri search for other commits by this committer
biology/checkm: Update 1.0.13 -> 1.0.16

Reported by:	portscout
1.0.13_2
26 Jul 2019 20:46:57
Revision:507372Original commit files touched by this commit
gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330
1.0.13_1
10 Apr 2019 06:18:32
Revision:498530Original commit files touched by this commit
antoine search for other commits by this committer
Bump a few PORTREVISIONs after r498529

With hat:	portmgr
1.0.13
09 Feb 2019 22:58:10
Revision:492531Original commit files touched by this commit
yuri search for other commits by this committer
biology/checkm: Update 1.0.12 -> 1.0.13

Reported by:	portscout
1.0.12_1
12 Dec 2018 01:35:36
Revision:487272Original commit files touched by this commit
gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 under most circumstances.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, as a double check, everything INDEX-11 showed depending on lang/gcc7.

PR:		231590
1.0.12
07 Dec 2018 00:26:04
Revision:486814Original commit files touched by this commit
yuri search for other commits by this committer
New port: math/checkm: Quality assessment tool for the microbial genomes

Number of commits found: 20