[med-svn] [Git][med-team/q2-cutadapt][pristine-tar] pristine-tar data for q2-cutadapt_2024.5.0.orig.tar.gz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2-cutadapt Commits: 3e06d822 by Michael R. Crusoe at 2024-06-25T04:20:37+02:00 pristine-tar data for q2-cutadapt_2024.5.0.orig.tar.gz - - - - - 2 changed files: - + q2-cutadapt_2024.5.0.orig.tar.gz.delta - + q2-cutadapt_2024.5.0.orig.tar.gz.id Changes: = q2-cutadapt_2024.5.0.orig.tar.gz.delta = Binary files /dev/null and b/q2-cutadapt_2024.5.0.orig.tar.gz.delta differ = q2-cutadapt_2024.5.0.orig.tar.gz.id = @@ -0,0 +1 @@ +107e91038e77b7b337851d03aec82615e4145706 View it on GitLab: https://salsa.debian.org/med-team/q2-cutadapt/-/commit/3e06d822e4af216e520dfb33747739479a080598 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-cutadapt/-/commit/3e06d822e4af216e520dfb33747739479a080598 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/python-skbio] Pushed new tag upstream/0.6.1
Michael R. Crusoe pushed new tag upstream/0.6.1 at Debian Med / python-skbio -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/python-skbio/-/tree/upstream/0.6.1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-cutadapt][upstream] New upstream version 2024.5.0
Michael R. Crusoe pushed to branch upstream at Debian Med / q2-cutadapt
Commits:
dcdb6e5a by Michael R. Crusoe at 2024-06-25T04:20:34+02:00
New upstream version 2024.5.0
- - - - -
1 changed file:
- q2_cutadapt/_version.py
Changes:
=
q2_cutadapt/_version.py
=
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
-git_refnames = " (tag: 2024.2.0, Release-2024.2)"
-git_full = "aee8d31a9f1517824d9bda653dc525a8c8721cfb"
-git_date = "2024-02-16 21:55:34 +"
+git_refnames = " (tag: 2024.5.0, Release-2024.5)"
+git_full = "c5cfac6ad68d588e622241791bd23c3e32f66e37"
+git_date = "2024-05-29 04:13:43 +"
keywords = {"refnames": git_refnames, "full": git_full, "date": git_date}
return keywords
View it on GitLab:
https://salsa.debian.org/med-team/q2-cutadapt/-/commit/dcdb6e5a1737a75debf487b3720e738420280098
--
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View it on GitLab:
https://salsa.debian.org/med-team/q2-cutadapt/-/commit/dcdb6e5a1737a75debf487b3720e738420280098
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[med-svn] [Git][med-team/q2-cutadapt][master] 6 commits: routine-update: New upstream version
Michael R. Crusoe pushed to branch master at Debian Med / q2-cutadapt
Commits:
74e2dafb by Michael R. Crusoe at 2024-06-25T04:20:33+02:00
routine-update: New upstream version
- - - - -
dcdb6e5a by Michael R. Crusoe at 2024-06-25T04:20:34+02:00
New upstream version 2024.5.0
- - - - -
14c4fa6c by Michael R. Crusoe at 2024-06-25T04:20:37+02:00
Update upstream source from tag upstream/2024.5.0
Update to upstream version 2024.5.0
with Debian dir 586a269b9f9606896e0f693b2fba3e9383f0e784
- - - - -
b0b576c7 by Michael R. Crusoe at 2024-06-25T04:21:07+02:00
routine-update: Regenerate debian/control from debian/control.in
- - - - -
7e67b05c by Michael R. Crusoe at 2024-06-25T04:27:07+02:00
d/patches/configparser.patch: copy from qiime
- - - - -
eb3dd18e by Michael R. Crusoe at 2024-06-25T04:27:07+02:00
routine-update: Ready to upload to unstable
- - - - -
6 changed files:
- debian/changelog
- debian/control
- + debian/patches/configparser.patch
- debian/patches/series
- debian/patches/skip-test-needing-internet.patch
- q2_cutadapt/_version.py
Changes:
=
debian/changelog
=
@@ -1,3 +1,12 @@
+q2-cutadapt (2024.5.0-1) unstable; urgency=medium
+
+ * Team upload.
+ * New upstream version
+ * Regenerate debian/control from debian/control.in (routine-update)
+ * d/patches/configparser.patch: copy from qiime
+
+ -- Michael R. Crusoe Tue, 25 Jun 2024 04:21:07 +0200
+
q2-cutadapt (2024.2.0-1) unstable; urgency=medium
* Team upload.
=
debian/control
=
@@ -11,8 +11,8 @@ Build-Depends: debhelper-compat (= 13),
python3-pytest-cov,
python3-pandas,
cutadapt,
- qiime (>= 2024.2),
- q2-types (>= 2024.2)
+ qiime (>= 2024.5),
+ q2-types (>= 2024.5)
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/q2-cutadapt
Vcs-Git: https://salsa.debian.org/med-team/q2-cutadapt.git
@@ -28,8 +28,8 @@ Depends: ${shlibs:Depends},
python3-pandas,
cutadapt,
pigz,
- qiime (>= 2024.2),
- q2-types (>= 2024.2)
+ qiime (>= 2024.5),
+ q2-types (>= 2024.5)
Description: QIIME 2 plugin to work with adapters in sequence data
QIIME 2 is a powerful, extensible, and decentralized microbiome analysis
package with a focus on data and analysis transparency. QIIME 2 enables
=
debian/patches/configparser.patch
=
@@ -0,0 +1,27 @@
+From: Athos Ribeiro
+Date: Mon, 3 Jun 2024 11:31:54 -0300
+Subject: Use ConfigParser instead of SafeConfigParser
+
+The configparser's SafeConfigParser has been renamed to ConfigParser in
+Python 3.2 [1]. It was finally removed in Python 3.12 [2].
+
+[1] https://docs.python.org/dev/whatsnew/3.2.html#configparser
+[2] https://docs.python.org/3/whatsnew/3.12.html#configparser
+
+Last-Update: 2024-06-03
+Forwarded: not-needed, see
https://github.com/qiime2/q2-sample-classifier/pull/229
+
+--- q2-types.orig/versioneer.py
q2-types/versioneer.py
+@@ -340,9 +340,9 @@
+ # configparser.NoOptionError (if it lacks "VCS="). See the docstring at
+ # the top of versioneer.py for instructions on writing your setup.cfg .
+ setup_cfg = os.path.join(root, "setup.cfg")
+-parser = configparser.SafeConfigParser()
++parser = configparser.ConfigParser()
+ with open(setup_cfg, "r") as f:
+-parser.readfp(f)
++parser.read_file(f)
+ VCS = parser.get("versioneer", "VCS") # mandatory
+
+ def get(parser, name):
=
debian/patches/series
=
@@ -1 +1,2 @@
+configparser.patch
skip-test-needing-internet.patch
=
debian/patches/skip-test-needing-internet.patch
=
@@ -14,7 +14,7 @@ This patch header follows DEP-3:
http://dep.debian.net/deps/dep3/
import pandas as pd
-@@ -779,6 +780,7 @@
+@@ -1195,6 +1196,7 @@
self.assertTrue(reverse.path.is_file())
=
q2_cutadapt/_version.py
=
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
-
[med-svn] [Git][med-team/python-skbio] Pushed new branch debian/experimental
Michael R. Crusoe pushed new branch debian/experimental at Debian Med / python-skbio -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/python-skbio/-/tree/debian/experimental You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-cutadapt] Pushed new tag upstream/2024.5.0
Michael R. Crusoe pushed new tag upstream/2024.5.0 at Debian Med / q2-cutadapt -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-cutadapt/-/tree/upstream/2024.5.0 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-cutadapt] Pushed new tag debian/2024.5.0-1
Michael R. Crusoe pushed new tag debian/2024.5.0-1 at Debian Med / q2-cutadapt -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-cutadapt/-/tree/debian/2024.5.0-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2cli][pristine-tar] pristine-tar data for q2cli_2024.5.0.orig.tar.gz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2cli Commits: e9cd27a4 by Michael R. Crusoe at 2024-06-25T03:51:59+02:00 pristine-tar data for q2cli_2024.5.0.orig.tar.gz - - - - - 2 changed files: - + q2cli_2024.5.0.orig.tar.gz.delta - + q2cli_2024.5.0.orig.tar.gz.id Changes: = q2cli_2024.5.0.orig.tar.gz.delta = Binary files /dev/null and b/q2cli_2024.5.0.orig.tar.gz.delta differ = q2cli_2024.5.0.orig.tar.gz.id = @@ -0,0 +1 @@ +af6d84a95feeb75286080be28a29a1fc0e39b8c2 View it on GitLab: https://salsa.debian.org/med-team/q2cli/-/commit/e9cd27a4e0906feb0493d375335519117b17b91b -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2cli/-/commit/e9cd27a4e0906feb0493d375335519117b17b91b You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2cli] Pushed new tag upstream/2024.5.0
Michael R. Crusoe pushed new tag upstream/2024.5.0 at Debian Med / q2cli -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2cli/-/tree/upstream/2024.5.0 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2cli] Pushed new tag debian/2024.5.0-1
Michael R. Crusoe pushed new tag debian/2024.5.0-1 at Debian Med / q2cli -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2cli/-/tree/debian/2024.5.0-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-sample-classifier][pristine-tar] pristine-tar data for q2-sample-classifier_2024.5.0.orig.tar.gz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2-sample-classifier Commits: 083391a6 by Michael R. Crusoe at 2024-06-25T03:40:53+02:00 pristine-tar data for q2-sample-classifier_2024.5.0.orig.tar.gz - - - - - 2 changed files: - + q2-sample-classifier_2024.5.0.orig.tar.gz.delta - + q2-sample-classifier_2024.5.0.orig.tar.gz.id Changes: = q2-sample-classifier_2024.5.0.orig.tar.gz.delta = Binary files /dev/null and b/q2-sample-classifier_2024.5.0.orig.tar.gz.delta differ = q2-sample-classifier_2024.5.0.orig.tar.gz.id = @@ -0,0 +1 @@ +755ffbca8f28fab45a6a2d58dcc710ce5c7e709d View it on GitLab: https://salsa.debian.org/med-team/q2-sample-classifier/-/commit/083391a65d03a2b9bd86f55836c1b5fa33551fcb -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-sample-classifier/-/commit/083391a65d03a2b9bd86f55836c1b5fa33551fcb You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-sample-classifier] Pushed new tag upstream/2024.5.0
Michael R. Crusoe pushed new tag upstream/2024.5.0 at Debian Med / q2-sample-classifier -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-sample-classifier/-/tree/upstream/2024.5.0 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-sample-classifier] Pushed new tag debian/2024.5.0-1
Michael R. Crusoe pushed new tag debian/2024.5.0-1 at Debian Med / q2-sample-classifier -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-sample-classifier/-/tree/debian/2024.5.0-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/python-skbio] Deleted branch debian/experimental
Michael R. Crusoe deleted branch debian/experimental at Debian Med / python-skbio -- This project does not include diff previews in email notifications. You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-emperor][master] 6 commits: New upstream version 2024.5.0
Michael R. Crusoe pushed to branch master at Debian Med / q2-emperor
Commits:
2f5ec64b by Michael R. Crusoe at 2024-06-25T03:34:49+02:00
New upstream version 2024.5.0
- - - - -
cf368eba by Michael R. Crusoe at 2024-06-25T03:34:49+02:00
routine-update: New upstream version
- - - - -
9e8194eb by Michael R. Crusoe at 2024-06-25T03:34:50+02:00
Update upstream source from tag upstream/2024.5.0
Update to upstream version 2024.5.0
with Debian dir 0ec1e55fb68c65f0e256ef0c18ff0d26740fd35a
- - - - -
a89da1e2 by Michael R. Crusoe at 2024-06-25T03:35:07+02:00
routine-update: Regenerate debian/control from debian/control.in
- - - - -
61bc5ff7 by Michael R. Crusoe at 2024-06-25T03:38:20+02:00
d/patches/configparser.patch: copy from qiime packaging
- - - - -
52ba609f by Michael R. Crusoe at 2024-06-25T03:38:20+02:00
routine-update: Ready to upload to unstable
- - - - -
5 changed files:
- debian/changelog
- debian/control
- + debian/patches/configparser.patch
- debian/patches/series
- q2_emperor/_version.py
Changes:
=
debian/changelog
=
@@ -1,3 +1,12 @@
+q2-emperor (2024.5.0-1) unstable; urgency=medium
+
+ * Team upload.
+ * New upstream version
+ * Regenerate debian/control from debian/control.in (routine-update)
+ * d/patches/configparser.patch: copy from qiime packaging
+
+ -- Michael R. Crusoe Tue, 25 Jun 2024 03:35:08 +0200
+
q2-emperor (2024.2.0-2) unstable; urgency=medium
* Team upload.
=
debian/control
=
@@ -12,9 +12,9 @@ Build-Depends: debhelper-compat (= 13),
python3-pytest ,
python3-pytest-cov ,
python3-emperor ,
- qiime (>= 2024.2) ,
- q2templates (>= 2024.2) ,
- q2-types (>= 2024.2)
+ qiime (>= 2024.5) ,
+ q2templates (>= 2024.5) ,
+ q2-types (>= 2024.5)
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/q2-emperor
Vcs-Git: https://salsa.debian.org/med-team/q2-emperor.git
@@ -29,9 +29,9 @@ Depends: ${shlibs:Depends},
python3-pandas,
python3-emperor,
python3-distutils,
- q2templates (>= 2024.2),
- q2-types (>= 2024.2),
- qiime (>= 2024.2)
+ q2templates (>= 2024.5),
+ q2-types (>= 2024.5),
+ qiime (>= 2024.5)
Description: QIIME2 plugin for display of ordination plots
QIIME 2 is a powerful, extensible, and decentralized microbiome analysis
package with a focus on data and analysis transparency. QIIME 2 enables
=
debian/patches/configparser.patch
=
@@ -0,0 +1,35 @@
+From: Athos Ribeiro
+Date: Mon, 3 Jun 2024 11:31:54 -0300
+Subject: [PATCH] Use ConfigParser instead of SafeConfigParser
+
+The configparser's SafeConfigParser has been renamed to ConfigParser in
+Python 3.2 [1]. It was finally removed in Python 3.12 [2].
+
+[1] https://docs.python.org/dev/whatsnew/3.2.html#configparser
+[2] https://docs.python.org/3/whatsnew/3.12.html#configparser
+
+Last-Update: 2024-06-03
+Forwarded: not-needed, see
https://github.com/qiime2/q2-sample-classifier/pull/229
+---
+ versioneer.py | 4 ++--
+ 1 file changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/versioneer.py b/versioneer.py
+index a5e7a20..886455f 100644
+--- a/versioneer.py
b/versioneer.py
+@@ -340,9 +340,9 @@ def get_config_from_root(root):
+ # configparser.NoOptionError (if it lacks "VCS="). See the docstring at
+ # the top of versioneer.py for instructions on writing your setup.cfg .
+ setup_cfg = os.path.join(root, "setup.cfg")
+-parser = configparser.SafeConfigParser()
++parser = configparser.ConfigParser()
+ with open(setup_cfg, "r") as f:
+-parser.readfp(f)
++parser.read_file(f)
+ VCS = parser.get("versioneer", "VCS") # mandatory
+
+ def get(parser, name):
+--
+2.43.0
+
=
debian/patches/series
=
@@ -1 +1,2 @@
+configparser.patch
skip-test-needing-internet.patch
=
q2_emperor/_version.py
=
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
-git_refnames = " (tag: 2024.2.0, Release-2024.2)"
-git_full = "8c5ab8122280eaafcb8b313deebcb81551b96119"
-git_date = "2024-02-16 21:57:08 +"
+git_refnames = " (tag: 2024.5.0, Release-2024.5)"
+git_full = "1b293301d45f3df156f88e00d66f2b2cef5554f6"
+git_date = "2024-05-29 04:15:14 +"
keywords = {"refnames": git_refnames, "full": git_full, "date": git_date}
return keywords
View it on GitLab:
[med-svn] [Git][med-team/q2-emperor][pristine-tar] pristine-tar data for q2-emperor_2024.5.0.orig.tar.gz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2-emperor Commits: 3c8f61b0 by Michael R. Crusoe at 2024-06-25T03:34:50+02:00 pristine-tar data for q2-emperor_2024.5.0.orig.tar.gz - - - - - 2 changed files: - + q2-emperor_2024.5.0.orig.tar.gz.delta - + q2-emperor_2024.5.0.orig.tar.gz.id Changes: = q2-emperor_2024.5.0.orig.tar.gz.delta = Binary files /dev/null and b/q2-emperor_2024.5.0.orig.tar.gz.delta differ = q2-emperor_2024.5.0.orig.tar.gz.id = @@ -0,0 +1 @@ +53b73b05040ffa9ba1016f7b6ad3501a1687929c View it on GitLab: https://salsa.debian.org/med-team/q2-emperor/-/commit/3c8f61b0119bbaf28662baf006819d79f062d115 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-emperor/-/commit/3c8f61b0119bbaf28662baf006819d79f062d115 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-emperor][upstream] New upstream version 2024.5.0
Michael R. Crusoe pushed to branch upstream at Debian Med / q2-emperor
Commits:
2f5ec64b by Michael R. Crusoe at 2024-06-25T03:34:49+02:00
New upstream version 2024.5.0
- - - - -
1 changed file:
- q2_emperor/_version.py
Changes:
=
q2_emperor/_version.py
=
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
-git_refnames = " (tag: 2024.2.0, Release-2024.2)"
-git_full = "8c5ab8122280eaafcb8b313deebcb81551b96119"
-git_date = "2024-02-16 21:57:08 +"
+git_refnames = " (tag: 2024.5.0, Release-2024.5)"
+git_full = "1b293301d45f3df156f88e00d66f2b2cef5554f6"
+git_date = "2024-05-29 04:15:14 +"
keywords = {"refnames": git_refnames, "full": git_full, "date": git_date}
return keywords
View it on GitLab:
https://salsa.debian.org/med-team/q2-emperor/-/commit/2f5ec64b49c3ed1606e61852b9cb39c983c32cda
--
This project does not include diff previews in email notifications.
View it on GitLab:
https://salsa.debian.org/med-team/q2-emperor/-/commit/2f5ec64b49c3ed1606e61852b9cb39c983c32cda
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https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-emperor] Pushed new tag debian/2024.5.0-1
Michael R. Crusoe pushed new tag debian/2024.5.0-1 at Debian Med / q2-emperor -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-emperor/-/tree/debian/2024.5.0-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-emperor] Pushed new tag upstream/2024.5.0
Michael R. Crusoe pushed new tag upstream/2024.5.0 at Debian Med / q2-emperor -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-emperor/-/tree/upstream/2024.5.0 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/community/helper-scripts][master] automatic update
Andreas Tille pushed to branch master at Debian Med / community / helper-scripts Commits: 8135319e by Andreas Tille at 2024-06-25T01:43:00+00:00 automatic update - - - - - 4 changed files: - debian-med-tests.txt - debian-science-tests.txt - outdated_med-packages.txt - python-team-tests.txt Changes: = debian-med-tests.txt = @@ -1,4 +1,4 @@ -Last-Update: Mon, 24 Jun 2024 13:42:04 + +Last-Update: Tue, 25 Jun 2024 01:42:04 + Source| Vote | Tasks | Tags ---+++-- = debian-science-tests.txt = @@ -1,4 +1,4 @@ -Last-Update: Mon, 24 Jun 2024 13:42:08 + +Last-Update: Tue, 25 Jun 2024 01:42:05 + Source | Vote | Tasks | Tags ---++-+- = outdated_med-packages.txt = The diff for this file was not included because it is too large. = python-team-tests.txt = @@ -1,4 +1,4 @@ -Last-Update: Mon, 24 Jun 2024 13:42:12 + +Last-Update: Tue, 25 Jun 2024 01:42:05 + Source | Vote | Tags ++ View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/8135319e9a690fb135960ff45884811bdaf66279 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/8135319e9a690fb135960ff45884811bdaf66279 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-feature-table][pristine-tar] pristine-tar data for q2-feature-table_2024.5.0+dfsg.orig.tar.xz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2-feature-table Commits: 65de9cbf by Michael R. Crusoe at 2024-06-25T02:52:53+02:00 pristine-tar data for q2-feature-table_2024.5.0+dfsg.orig.tar.xz - - - - - 2 changed files: - + q2-feature-table_2024.5.0+dfsg.orig.tar.xz.delta - + q2-feature-table_2024.5.0+dfsg.orig.tar.xz.id Changes: = q2-feature-table_2024.5.0+dfsg.orig.tar.xz.delta = Binary files /dev/null and b/q2-feature-table_2024.5.0+dfsg.orig.tar.xz.delta differ = q2-feature-table_2024.5.0+dfsg.orig.tar.xz.id = @@ -0,0 +1 @@ +4c368376413260e1c10e0dce96c7323b2f094b96 View it on GitLab: https://salsa.debian.org/med-team/q2-feature-table/-/commit/65de9cbf91f54ddc419a9d8508768d003dfdd847 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-feature-table/-/commit/65de9cbf91f54ddc419a9d8508768d003dfdd847 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-feature-table] Pushed new tag upstream/2024.5.0+dfsg
Michael R. Crusoe pushed new tag upstream/2024.5.0+dfsg at Debian Med / q2-feature-table -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-feature-table/-/tree/upstream/2024.5.0+dfsg You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-feature-table] Pushed new tag debian/2024.5.0+dfsg-1
Michael R. Crusoe pushed new tag debian/2024.5.0+dfsg-1 at Debian Med / q2-feature-table -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-feature-table/-/tree/debian/2024.5.0+dfsg-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-types][pristine-tar] pristine-tar data for q2-types_2024.5.0.orig.tar.gz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2-types Commits: e3048966 by Michael R. Crusoe at 2024-06-25T03:01:42+02:00 pristine-tar data for q2-types_2024.5.0.orig.tar.gz - - - - - 2 changed files: - + q2-types_2024.5.0.orig.tar.gz.delta - + q2-types_2024.5.0.orig.tar.gz.id Changes: = q2-types_2024.5.0.orig.tar.gz.delta = Binary files /dev/null and b/q2-types_2024.5.0.orig.tar.gz.delta differ = q2-types_2024.5.0.orig.tar.gz.id = @@ -0,0 +1 @@ +273c4091c3c0a4e6abe18278fac30fa56ffd8788 View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/commit/e304896688d0d01017bec8270aedd0d1c3e31355 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/commit/e304896688d0d01017bec8270aedd0d1c3e31355 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-types][master] 9 commits: routine-update: New upstream version
Michael R. Crusoe pushed to branch master at Debian Med / q2-types Commits: 6575e74b by Michael R. Crusoe at 2024-06-25T03:01:01+02:00 routine-update: New upstream version - - - - - ea1a667a by Michael R. Crusoe at 2024-06-25T03:01:02+02:00 New upstream version 2024.5.0 - - - - - 782a1d86 by Michael R. Crusoe at 2024-06-25T03:01:42+02:00 Update upstream source from tag upstream/2024.5.0 Update to upstream version 2024.5.0 with Debian dir 1bf1a753a96a14c4a5af00c341cf043f329ef797 - - - - - 50a9ee45 by Michael R. Crusoe at 2024-06-25T03:02:03+02:00 routine-update: Regenerate debian/control from debian/control.in - - - - - 68706be6 by Michael R. Crusoe at 2024-06-25T03:05:29+02:00 d/patches/pandas-2.0.patch: remove, applied upstream - - - - - 450d1975 by Michael R. Crusoe at 2024-06-25T03:10:23+02:00 d/patches/configparser.patch: copy from qiime packaging - - - - - 02269a93 by Michael R. Crusoe at 2024-06-25T03:16:53+02:00 Only build/test for Python 3.11 - - - - - d78d485a by Michael R. Crusoe at 2024-06-25T03:21:26+02:00 routine-update: Regenerate debian/control from debian/control.in - - - - - f8666a6c by Michael R. Crusoe at 2024-06-25T03:21:26+02:00 routine-update: Ready to upload to unstable - - - - - 30 changed files: - debian/changelog - debian/control - debian/control.in - + debian/patches/configparser.patch - − debian/patches/pandas-2.0.patch - debian/patches/series - debian/rules - debian/tests/run-unit-test - q2_types/__init__.py - + q2_types/_util.py - q2_types/_version.py - q2_types/bowtie2/__init__.py - q2_types/bowtie2/_formats.py - q2_types/feature_data/__init__.py - q2_types/feature_data/_format.py - q2_types/feature_data/_transformer.py - q2_types/feature_data/_type.py - + q2_types/feature_data/_util.py - + q2_types/feature_data/tests/data/emp_multiplexed/barcodes.fastq.gz - + q2_types/feature_data/tests/data/emp_multiplexed/sequences.fastq.gz - + q2_types/feature_data/tests/data/emp_multiplexed_single_end/Undetermined_S0_L001_I1_001.fastq.gz - + q2_types/feature_data/tests/data/emp_multiplexed_single_end/Undetermined_S0_L001_R1_001.fastq.gz - + q2_types/feature_data/tests/data/empty.tsv - + q2_types/feature_data/tests/data/feature-table-with-sequence-metadata.biom - + q2_types/feature_data/tests/data/sequence_characteristics_length.tsv - + q2_types/feature_data/tests/data/sequence_characteristics_only_index.tsv - q2_types/feature_data/tests/test_format.py - q2_types/feature_data/tests/test_transformer.py - q2_types/feature_data/tests/test_type.py - q2_types/feature_data_mag/__init__.py The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/compare/c1cfd88cc6dfdf851dcbd5925c851e7388fefc1e...f8666a6c981b5e575866bef11b09979c97dfdbac -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/compare/c1cfd88cc6dfdf851dcbd5925c851e7388fefc1e...f8666a6c981b5e575866bef11b09979c97dfdbac You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-types][upstream] New upstream version 2024.5.0
Michael R. Crusoe pushed to branch upstream at Debian Med / q2-types Commits: ea1a667a by Michael R. Crusoe at 2024-06-25T03:01:02+02:00 New upstream version 2024.5.0 - - - - - 30 changed files: - q2_types/__init__.py - + q2_types/_util.py - q2_types/_version.py - q2_types/bowtie2/__init__.py - q2_types/bowtie2/_formats.py - q2_types/feature_data/__init__.py - q2_types/feature_data/_format.py - q2_types/feature_data/_transformer.py - q2_types/feature_data/_type.py - + q2_types/feature_data/_util.py - + q2_types/feature_data/tests/data/emp_multiplexed/barcodes.fastq.gz - + q2_types/feature_data/tests/data/emp_multiplexed/sequences.fastq.gz - + q2_types/feature_data/tests/data/emp_multiplexed_single_end/Undetermined_S0_L001_I1_001.fastq.gz - + q2_types/feature_data/tests/data/emp_multiplexed_single_end/Undetermined_S0_L001_R1_001.fastq.gz - + q2_types/feature_data/tests/data/empty.tsv - + q2_types/feature_data/tests/data/feature-table-with-sequence-metadata.biom - + q2_types/feature_data/tests/data/sequence_characteristics_length.tsv - + q2_types/feature_data/tests/data/sequence_characteristics_only_index.tsv - q2_types/feature_data/tests/test_format.py - q2_types/feature_data/tests/test_transformer.py - q2_types/feature_data/tests/test_type.py - q2_types/feature_data_mag/__init__.py - q2_types/feature_data_mag/_format.py - q2_types/feature_data_mag/_transformer.py - q2_types/feature_data_mag/_type.py - + q2_types/feature_data_mag/tests/data/ortholog_annotation_mags/d33dbcbe-eedd-4a19-8b93-e76a15ce107f.emapper.annotations - + q2_types/feature_data_mag/tests/data/ortholog_annotation_mags/e6408340-b308-4325-83a1-ea406f3e19ad.emapper.annotations - + q2_types/feature_data_mag/tests/data/ortholog_annotation_samples/test_output1.emapper.annotations - + q2_types/feature_data_mag/tests/data/ortholog_annotation_samples/test_output2.emapper.annotations - q2_types/feature_data_mag/tests/test_format.py The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/commit/ea1a667a7a1db75b34cb5bdaec7bffd43c453c14 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/commit/ea1a667a7a1db75b34cb5bdaec7bffd43c453c14 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-types] Pushed new tag upstream/2024.5.0
Michael R. Crusoe pushed new tag upstream/2024.5.0 at Debian Med / q2-types -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/tree/upstream/2024.5.0 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2-types] Pushed new tag debian/2024.5.0-1
Michael R. Crusoe pushed new tag debian/2024.5.0-1 at Debian Med / q2-types -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2-types/-/tree/debian/2024.5.0-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][python-team/packages/mypy][pristine-tar] pristine-tar data for mypy_1.10.1.orig.tar.gz
Michael R. Crusoe pushed to branch pristine-tar at Debian Python Team / packages / mypy Commits: 66464deb by Michael R. Crusoe at 2024-06-25T03:15:59+02:00 pristine-tar data for mypy_1.10.1.orig.tar.gz - - - - - 2 changed files: - + mypy_1.10.1.orig.tar.gz.delta - + mypy_1.10.1.orig.tar.gz.id Changes: = mypy_1.10.1.orig.tar.gz.delta = Binary files /dev/null and b/mypy_1.10.1.orig.tar.gz.delta differ = mypy_1.10.1.orig.tar.gz.id = @@ -0,0 +1 @@ +52943a8396653cddeca132286378975bc7b6cdea View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/commit/66464deb483ccb1b6c27751d9709d4d223f55094 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/commit/66464deb483ccb1b6c27751d9709d4d223f55094 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][python-team/packages/mypy][upstream] New upstream version 1.10.1
Michael R. Crusoe pushed to branch upstream at Debian Python Team / packages / mypy Commits: 6534d9db by Michael R. Crusoe at 2024-06-25T03:15:48+02:00 New upstream version 1.10.1 - - - - - 6 changed files: - PKG-INFO - mypy.egg-info/PKG-INFO - mypy/build.py - mypy/errors.py - mypy/version.py - test-data/unit/check-incremental.test Changes: = PKG-INFO = @@ -1,6 +1,6 @@ Metadata-Version: 2.1 Name: mypy -Version: 1.10.0 +Version: 1.10.1 Summary: Optional static typing for Python Home-page: https://www.mypy-lang.org/ Author: Jukka Lehtosalo = mypy.egg-info/PKG-INFO = @@ -1,6 +1,6 @@ Metadata-Version: 2.1 Name: mypy -Version: 1.10.0 +Version: 1.10.1 Summary: Optional static typing for Python Home-page: https://www.mypy-lang.org/ Author: Jukka Lehtosalo = mypy/build.py = @@ -3459,11 +3459,12 @@ def process_stale_scc(graph: Graph, scc: list[str], manager: BuildManager) -> No for id in stale: graph[id].transitive_error = True for id in stale: -manager.flush_errors( -manager.errors.simplify_path(graph[id].xpath), -manager.errors.file_messages(graph[id].xpath), -False, -) +if graph[id].xpath not in manager.errors.ignored_files: +manager.flush_errors( +manager.errors.simplify_path(graph[id].xpath), +manager.errors.file_messages(graph[id].xpath), +False, +) graph[id].write_cache() graph[id].mark_as_rechecked() = mypy/errors.py = @@ -802,7 +802,7 @@ class Errors: def is_errors_for_file(self, file: str) -> bool: """Are there any errors for the given file?""" -return file in self.error_info_map +return file in self.error_info_map and file not in self.ignored_files def prefer_simple_messages(self) -> bool: """Should we generate simple/fast error messages? = mypy/version.py = @@ -8,7 +8,7 @@ from mypy import git # - Release versions have the form "1.2.3". # - Dev versions have the form "1.2.3+dev" (PLUS sign to conform to PEP 440). # - Before 1.0 we had the form "0.NNN". -__version__ = "1.10.0" +__version__ = "1.10.1" base_version = __version__ mypy_dir = os.path.abspath(os.path.dirname(os.path.dirname(__file__))) = test-data/unit/check-incremental.test = @@ -1833,6 +1833,21 @@ main:3: note: Revealed type is "builtins.int" main:3: note: Revealed type is "Any" +[case testIncrementalIgnoreErrors] +# flags: --config-file tmp/mypy.ini +import a +[file a.py] +import module_that_will_be_deleted +[file module_that_will_be_deleted.py] + +[file mypy.ini] +\[mypy] +\[mypy-a] +ignore_errors = True +[delete module_that_will_be_deleted.py.2] +[out1] +[out2] + [case testIncrementalNamedTupleInMethod] from ntcrash import nope [file ntcrash.py] View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/commit/6534d9db1551344937092633884c1ccb26ca3def -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/commit/6534d9db1551344937092633884c1ccb26ca3def You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][python-team/packages/mypy][master] 5 commits: New upstream version 1.10.0
Michael R. Crusoe pushed to branch master at Debian Python Team / packages / mypy Commits: d8289f16 by Michael R. Crusoe at 2024-04-24T17:06:58+03:00 New upstream version 1.10.0 - - - - - 75b9a62d by Michael R. Crusoe at 2024-06-25T03:15:47+02:00 routine-update: New upstream version - - - - - 6534d9db by Michael R. Crusoe at 2024-06-25T03:15:48+02:00 New upstream version 1.10.1 - - - - - d631955a by Michael R. Crusoe at 2024-06-25T03:15:59+02:00 Update upstream source from tag upstream/1.10.1 Update to upstream version 1.10.1 with Debian dir da8670c6b3210e0ac1d34a4685f41ee81787ab1b - - - - - 43a4053f by Michael R. Crusoe at 2024-06-25T03:16:18+02:00 routine-update: Ready to upload to unstable - - - - - 7 changed files: - PKG-INFO - debian/changelog - mypy.egg-info/PKG-INFO - mypy/build.py - mypy/errors.py - mypy/version.py - test-data/unit/check-incremental.test Changes: = PKG-INFO = @@ -1,6 +1,6 @@ Metadata-Version: 2.1 Name: mypy -Version: 1.10.0 +Version: 1.10.1 Summary: Optional static typing for Python Home-page: https://www.mypy-lang.org/ Author: Jukka Lehtosalo = debian/changelog = @@ -1,3 +1,9 @@ +mypy (1.10.1-1) unstable; urgency=medium + + * New upstream version + + -- Michael R. Crusoe Tue, 25 Jun 2024 03:16:18 +0200 + mypy (1.10.0-1) unstable; urgency=medium * New upstream version = mypy.egg-info/PKG-INFO = @@ -1,6 +1,6 @@ Metadata-Version: 2.1 Name: mypy -Version: 1.10.0 +Version: 1.10.1 Summary: Optional static typing for Python Home-page: https://www.mypy-lang.org/ Author: Jukka Lehtosalo = mypy/build.py = @@ -3459,11 +3459,12 @@ def process_stale_scc(graph: Graph, scc: list[str], manager: BuildManager) -> No for id in stale: graph[id].transitive_error = True for id in stale: -manager.flush_errors( -manager.errors.simplify_path(graph[id].xpath), -manager.errors.file_messages(graph[id].xpath), -False, -) +if graph[id].xpath not in manager.errors.ignored_files: +manager.flush_errors( +manager.errors.simplify_path(graph[id].xpath), +manager.errors.file_messages(graph[id].xpath), +False, +) graph[id].write_cache() graph[id].mark_as_rechecked() = mypy/errors.py = @@ -802,7 +802,7 @@ class Errors: def is_errors_for_file(self, file: str) -> bool: """Are there any errors for the given file?""" -return file in self.error_info_map +return file in self.error_info_map and file not in self.ignored_files def prefer_simple_messages(self) -> bool: """Should we generate simple/fast error messages? = mypy/version.py = @@ -8,7 +8,7 @@ from mypy import git # - Release versions have the form "1.2.3". # - Dev versions have the form "1.2.3+dev" (PLUS sign to conform to PEP 440). # - Before 1.0 we had the form "0.NNN". -__version__ = "1.10.0" +__version__ = "1.10.1" base_version = __version__ mypy_dir = os.path.abspath(os.path.dirname(os.path.dirname(__file__))) = test-data/unit/check-incremental.test = @@ -1833,6 +1833,21 @@ main:3: note: Revealed type is "builtins.int" main:3: note: Revealed type is "Any" +[case testIncrementalIgnoreErrors] +# flags: --config-file tmp/mypy.ini +import a +[file a.py] +import module_that_will_be_deleted +[file module_that_will_be_deleted.py] + +[file mypy.ini] +\[mypy] +\[mypy-a] +ignore_errors = True +[delete module_that_will_be_deleted.py.2] +[out1] +[out2] + [case testIncrementalNamedTupleInMethod] from ntcrash import nope [file ntcrash.py] View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/compare/cd66531d3d1cbc23bba820b4a233664b341f0f2b...43a4053ff661f93b6e09bf0d490945d69dd7b96f -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/compare/cd66531d3d1cbc23bba820b4a233664b341f0f2b...43a4053ff661f93b6e09bf0d490945d69dd7b96f You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][python-team/packages/mypy] Pushed new tag upstream/1.10.1
Michael R. Crusoe pushed new tag upstream/1.10.1 at Debian Python Team / packages / mypy -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/tree/upstream/1.10.1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][python-team/packages/mypy] Pushed new tag debian/1.10.1-1
Michael R. Crusoe pushed new tag debian/1.10.1-1 at Debian Python Team / packages / mypy -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/python-team/packages/mypy/-/tree/debian/1.10.1-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2templates][pristine-tar] pristine-tar data for q2templates_2024.5.0+ds.orig.tar.xz
Michael R. Crusoe pushed to branch pristine-tar at Debian Med / q2templates Commits: 62535d01 by Michael R. Crusoe at 2024-06-25T02:56:46+02:00 pristine-tar data for q2templates_2024.5.0+ds.orig.tar.xz - - - - - 2 changed files: - + q2templates_2024.5.0+ds.orig.tar.xz.delta - + q2templates_2024.5.0+ds.orig.tar.xz.id Changes: = q2templates_2024.5.0+ds.orig.tar.xz.delta = Binary files /dev/null and b/q2templates_2024.5.0+ds.orig.tar.xz.delta differ = q2templates_2024.5.0+ds.orig.tar.xz.id = @@ -0,0 +1 @@ +5767f4efd56019eb8e2953ee09efd5121b8f603c View it on GitLab: https://salsa.debian.org/med-team/q2templates/-/commit/62535d013e236cd28599fa97e4806d13846b3c47 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2templates/-/commit/62535d013e236cd28599fa97e4806d13846b3c47 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2templates][master] 5 commits: New upstream version 2024.5.0+ds
Michael R. Crusoe pushed to branch master at Debian Med / q2templates
Commits:
c25df038 by Michael R. Crusoe at 2024-06-25T02:56:45+02:00
New upstream version 2024.5.0+ds
- - - - -
56764a90 by Michael R. Crusoe at 2024-06-25T02:56:45+02:00
routine-update: New upstream version
- - - - -
c4598897 by Michael R. Crusoe at 2024-06-25T02:56:46+02:00
Update upstream source from tag upstream/2024.5.0+ds
Update to upstream version 2024.5.0+ds
with Debian dir f411ec8287dcecd7ed306fba36d932540aeb4315
- - - - -
e62c0868 by Michael R. Crusoe at 2024-06-25T02:58:33+02:00
d/patches/pandas2.0.patch: dropped, applied upstream
- - - - -
e1b4242b by Michael R. Crusoe at 2024-06-25T03:00:51+02:00
routine-update: Ready to upload to unstable
- - - - -
5 changed files:
- debian/changelog
- − debian/patches/pandas2.0.patch
- debian/patches/series
- q2templates/_version.py
- q2templates/util.py
Changes:
=
debian/changelog
=
@@ -1,3 +1,11 @@
+q2templates (2024.5.0+ds-1) unstable; urgency=medium
+
+ * Team upload.
+ * New upstream version
+ * d/patches/pandas2.0.patch: dropped, applied upstream
+
+ -- Michael R. Crusoe Tue, 25 Jun 2024 03:00:51 +0200
+
q2templates (2024.2.0+ds-1) unstable; urgency=medium
* Team upload.
=
debian/patches/pandas2.0.patch deleted
=
@@ -1,19 +0,0 @@
-Description: Fix for pandas 2.0
- Support for negative integer for
:attr:`pd.options.display.max_colwidth`
- is deprecated in favor of using ``None``
-Bug-Debian: https://bugs.debian.org/1044068
-Author: Andreas Tille
-s3v
-Last-Update: Fri, 16 Feb 2024 17:30:31 +0100
-
a/q2templates/util.py
-+++ b/q2templates/util.py
-@@ -43,7 +43,7 @@ def df_to_html(df, border="0", classes=(
- .. [2] https://github.com/pandas-dev/pandas/issues/1852
-
- """
--with pd.option_context('display.max_colwidth', -1):
-+with pd.option_context('display.max_colwidth', None):
- return df.to_html(border=border, classes=classes, **kwargs)
-
-
=
debian/patches/series
=
@@ -1,3 +1,2 @@
jquery_remove_version.patch
-pandas2.0.patch
python3.12.patch
=
q2templates/_version.py
=
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
-git_refnames = " (tag: 2024.2.0, Release-2024.2)"
-git_full = "2b88ef1ed21f48dbf45203a768442166679f258f"
-git_date = "2024-02-16 21:55:12 +"
+git_refnames = " (tag: 2024.5.0, Release-2024.5)"
+git_full = "6ce2072be0d2e0d9f75fcbd40572302773c14a98"
+git_date = "2024-05-29 04:19:47 +"
keywords = {"refnames": git_refnames, "full": git_full, "date": git_date}
return keywords
=
q2templates/util.py
=
@@ -43,7 +43,7 @@ def df_to_html(df, border="0", classes=('table',
'table-striped',
.. [2] https://github.com/pandas-dev/pandas/issues/1852
"""
-with pd.option_context('display.max_colwidth', -1):
+with pd.option_context('display.max_colwidth', None):
return df.to_html(border=border, classes=classes, **kwargs)
View it on GitLab:
https://salsa.debian.org/med-team/q2templates/-/compare/d2cbd57fc57abbc3168cdd0e33cbb87ff280d407...e1b4242bb7cd23b4f8b8b63d57be04c8e64023e8
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[med-svn] [Git][med-team/q2templates][upstream] New upstream version 2024.5.0+ds
Michael R. Crusoe pushed to branch upstream at Debian Med / q2templates
Commits:
c25df038 by Michael R. Crusoe at 2024-06-25T02:56:45+02:00
New upstream version 2024.5.0+ds
- - - - -
2 changed files:
- q2templates/_version.py
- q2templates/util.py
Changes:
=
q2templates/_version.py
=
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
-git_refnames = " (tag: 2024.2.0, Release-2024.2)"
-git_full = "2b88ef1ed21f48dbf45203a768442166679f258f"
-git_date = "2024-02-16 21:55:12 +"
+git_refnames = " (tag: 2024.5.0, Release-2024.5)"
+git_full = "6ce2072be0d2e0d9f75fcbd40572302773c14a98"
+git_date = "2024-05-29 04:19:47 +"
keywords = {"refnames": git_refnames, "full": git_full, "date": git_date}
return keywords
=
q2templates/util.py
=
@@ -43,7 +43,7 @@ def df_to_html(df, border="0", classes=('table',
'table-striped',
.. [2] https://github.com/pandas-dev/pandas/issues/1852
"""
-with pd.option_context('display.max_colwidth', -1):
+with pd.option_context('display.max_colwidth', None):
return df.to_html(border=border, classes=classes, **kwargs)
View it on GitLab:
https://salsa.debian.org/med-team/q2templates/-/commit/c25df038a8c2c6c161194956aca350e04ab1e6a7
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[med-svn] [Git][med-team/q2templates] Pushed new tag upstream/2024.5.0+ds
Michael R. Crusoe pushed new tag upstream/2024.5.0+ds at Debian Med / q2templates -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2templates/-/tree/upstream/2024.5.0+ds You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/q2templates] Pushed new tag debian/2024.5.0+ds-1
Michael R. Crusoe pushed new tag debian/2024.5.0+ds-1 at Debian Med / q2templates -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/q2templates/-/tree/debian/2024.5.0+ds-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/bcftools] Pushed new tag debian/1.20-2
Charles Plessy pushed new tag debian/1.20-2 at Debian Med / bcftools -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/bcftools/-/tree/debian/1.20-2 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/bcftools][master] 2 commits: Only recommend python-matplotlib and python3-gffutils
Charles Plessy pushed to branch master at Debian Med / bcftools
Commits:
88146e98 by Charles Plessy at 2024-06-25T08:30:49+09:00
Only recommend python-matplotlib and python3-gffutils
This allows advanced users to make a minimal installation of bcftools
without these python libraries. Regular users still get them as
Recommends are installed by default.
Bioconda containers do not shiop these Python libraries either.
- - - - -
21161956 by Charles Plessy at 2024-06-25T08:34:50+09:00
bcftools (1.20-2) unstable; urgency=medium
* Team upload
* Only recommend python-matplotlib and python3-gffutils
-- Charles Plessy ple...@debian.org Tue, 25 Jun 2024 08:34:02 +0900
- - - - -
2 changed files:
- debian/changelog
- debian/control
Changes:
=
debian/changelog
=
@@ -1,3 +1,10 @@
+bcftools (1.20-2) unstable; urgency=medium
+
+ * Team upload
+ * Only recommend python-matplotlib and python3-gffutils
+
+ -- Charles Plessy Tue, 25 Jun 2024 08:34:02 +0900
+
bcftools (1.20-1) unstable; urgency=medium
[ Charles Plessy ]
=
debian/control
=
@@ -22,10 +22,10 @@ Package: bcftools
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends},
- sse2-support [i386],
+ sse2-support [i386]
+Recommends: perl,
python3-gffutils,
python3-matplotlib
-Recommends: perl
Suggests:
# These are needed for plot-vcfstats
python3,
View it on GitLab:
https://salsa.debian.org/med-team/bcftools/-/compare/f2576d2a782334295689fe9c1d93c4ac97c287c8...21161956236aa78e389b1aad36fa97d00539530c
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[med-svn] [Git][med-team/dcmtk] Pushed new tag debian/3.6.8-4
Mathieu Malaterre pushed new tag debian/3.6.8-4 at Debian Med / dcmtk -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/dcmtk/-/tree/debian/3.6.8-4 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/qiime][master] routine-update: Ready to upload to unstable
Michael R. Crusoe pushed to branch master at Debian Med / qiime Commits: 3df04b7b by Michael R. Crusoe at 2024-06-24T18:22:48+02:00 routine-update: Ready to upload to unstable - - - - - 1 changed file: - debian/changelog Changes: = debian/changelog = @@ -1,4 +1,4 @@ -qiime (2024.5.0-1) UNRELEASED; urgency=medium +qiime (2024.5.0-1) unstable; urgency=medium [ Andreas Tille ] * New upstream version @@ -17,7 +17,7 @@ qiime (2024.5.0-1) UNRELEASED; urgency=medium 3.11 * Standards-Version: 4.6.2 (routine-update) - -- Andreas Tille Thu, 06 Jun 2024 15:33:01 +0200 + -- Michael R. Crusoe Mon, 24 Jun 2024 18:22:48 +0200 qiime (2024.2.0-1) unstable; urgency=medium View it on GitLab: https://salsa.debian.org/med-team/qiime/-/commit/3df04b7b57406ae9c7e3574d9b2c13c461f430d9 -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/qiime/-/commit/3df04b7b57406ae9c7e3574d9b2c13c461f430d9 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/qiime] Pushed new tag debian/2024.5.0-1
Michael R. Crusoe pushed new tag debian/2024.5.0-1 at Debian Med / qiime -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/qiime/-/tree/debian/2024.5.0-1 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
[med-svn] [Git][med-team/qiime][master] 4 commits: back out Python3.12 patch
Michael R. Crusoe pushed to branch master at Debian Med / qiime
Commits:
dd551745 by Michael R. Crusoe at 2024-06-24T17:31:59+02:00
back out Python3.12 patch
- - - - -
0df7b194 by Michael R. Crusoe at 2024-06-24T17:43:02+02:00
Only build for Python 3.11 until upstream catches up with Python 3.12.
- - - - -
36d6e4ff by Michael R. Crusoe at 2024-06-24T18:16:37+02:00
d/tests/run-unit-test: likewise, run the unit tests using Python 3.11
- - - - -
91ee24f6 by Michael R. Crusoe at 2024-06-24T18:22:23+02:00
routine-update: Standards-Version: 4.6.2
- - - - -
6 changed files:
- debian/changelog
- debian/control
- debian/patches/series
- debian/rules
- debian/tests/control
- debian/tests/run-unit-test
Changes:
=
debian/changelog
=
@@ -2,7 +2,6 @@ qiime (2024.5.0-1) UNRELEASED; urgency=medium
[ Andreas Tille ]
* New upstream version
- * Fix issue with self._raw_path for Python3.12
* Standards-Version: 4.7.0 (routine-update)
* Replace python3-appdirs by python3-platformdirs
Closes: #1068006
@@ -12,6 +11,11 @@ qiime (2024.5.0-1) UNRELEASED; urgency=medium
[ Michael R. Crusoe ]
* Added patch to finish migration to platformdirs from appdirs.
+ * d/rules: Only build for Python 3.11 until upstream catches up with
+ Python 3.12.
+ * d/tests/run-unit-test: likewise, run the unit tests using Python
+3.11
+ * Standards-Version: 4.6.2 (routine-update)
-- Andreas Tille Thu, 06 Jun 2024 15:33:01 +0200
=
debian/control
=
@@ -8,7 +8,7 @@ Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
dh-sequence-python3,
- python3,
+ python3-all,
python3-setuptools,
python3-pytest ,
python3-platformdirs ,
@@ -21,7 +21,7 @@ Build-Depends: debhelper-compat (= 13),
python3-tzlocal ,
python3-yaml ,
python3-networkx
-Standards-Version: 4.7.0
+Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/qiime
Vcs-Git: https://salsa.debian.org/med-team/qiime.git
Homepage: https://qiime2.org
@@ -46,7 +46,8 @@ Depends: ${shlibs:Depends},
python3-dateutil,
python3-networkx,
python3-psutil,
- python3-flufl.lock
+ python3-flufl.lock,
+ python3-setuptools
Recommends: q2cli,
q2templates,
q2-cutadapt,
=
debian/patches/series
=
@@ -2,5 +2,5 @@ platformdirs
python3.8.patch
enable_decorator_5.patch
python3.10.patch
-python3.12.patch
+#python3.12.patch # doesn't work
configparser.patch
=
debian/rules
=
@@ -9,6 +9,8 @@ include /usr/share/dpkg/default.mk
export DEB_BUILD_MAINT_OPTIONS=hardening=+all
+export PYBUILD_DISABLE=python3.12
+
%:
dh $@ --buildsystem=pybuild
=
debian/tests/control
=
@@ -1,3 +1,3 @@
Tests: run-unit-test
-Depends: @, python3-setuptools, python3-pytest, dpkg-dev
+Depends: @, python3-pytest, python3.11
Restrictions: allow-stderr, skippable
=
debian/tests/run-unit-test
=
@@ -22,4 +22,4 @@ if [ ! -e /usr/bin/pytest-3 ] ; then
fi
# Run build-time tests
-QIIMETEST= pytest-3
+QIIMETEST= python3.11 -m pytest
View it on GitLab:
https://salsa.debian.org/med-team/qiime/-/compare/9ac56e0a3dac450678efcafc3b4c6c51d7760778...91ee24f652a637216c6b8e6a10838c1194f89079
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[med-svn] [Git][med-team/qiime][master] Added patch to finish migration to platformdirs from appdirs. Closes: #1068006
Michael R. Crusoe pushed to branch master at Debian Med / qiime
Commits:
9ac56e0a by Michael R. Crusoe at 2024-06-24T16:26:38+02:00
Added patch to finish migration to platformdirs from appdirs. Closes: #1068006
- - - - -
4 changed files:
- debian/changelog
- debian/control
- + debian/patches/platformdirs
- debian/patches/series
Changes:
=
debian/changelog
=
@@ -10,6 +10,9 @@ qiime (2024.5.0-1) UNRELEASED; urgency=medium
[ Athos Ribeiro ]
* d/p/configparser.patch: support python 3.12 configparser
+ [ Michael R. Crusoe ]
+ * Added patch to finish migration to platformdirs from appdirs.
+
-- Andreas Tille Thu, 06 Jun 2024 15:33:01 +0200
qiime (2024.2.0-1) unstable; urgency=medium
=
debian/control
=
@@ -11,7 +11,7 @@ Build-Depends: debhelper-compat (= 13),
python3,
python3-setuptools,
python3-pytest ,
- python3-appdirs ,
+ python3-platformdirs ,
python3-bibtexparser ,
python3-decorator ,
python3-dill ,
=
debian/patches/platformdirs
=
@@ -0,0 +1,59 @@
+From: Michael R. Crusoe
+Subject: Switch to platform dirs from appdirs
+Debian-Bug:1068006
+
+> python3-appdirs is dead upstream[1] and its Debian maintainer has indicated
+> that it should not be included in trixie[2]. A recommended replacement is
+> python3-platformdirs[3], which is a fork of appdirs with a very similar API.
+> [1]
https://github.com/ActiveState/appdirs/commit/8734277956c1df3b85385e6b308e954910533884
+> [2] https://bugs.debian.org/1060427
+> [3] https://pypi.org/project/platformdirs/
+
+--- qiime.orig/qiime2/sdk/parallel_config.py
qiime/qiime2/sdk/parallel_config.py
+@@ -8,12 +8,12 @@
+
+ import os
+ import psutil
+-import appdirs
+ import threading
+ import importlib
+
+ import parsl
+ import tomlkit
++from platformdirs import user_config_dir
+
+ PARALLEL_CONFIG = threading.local()
+ PARALLEL_CONFIG.dfk = None
+@@ -161,16 +161,16 @@
+
+ if config_fp is None:
+ # 2. Check in user writable location
+-# appdirs.user_config_dir(appname='qiime2', author='...')
++# user_config_dir(appname='qiime2', author='...')
+ if os.path.exists(fp_ := os.path.join(
+-appdirs.user_config_dir('qiime2'), 'qiime2_config.toml')):
++user_config_dir('qiime2'), 'qiime2_config.toml')):
+ config_fp = fp_
+ # 3. Check in admin writable location
+ # /etc/
+ # site_config_dir
+-# appdirs.site_config_dir(appname='qiime2, author='...')
++# site_config_dir(appname='qiime2, author='...')
+ elif os.path.exists(fp_ := os.path.join(
+-appdirs.site_config_dir('qiime2'), 'qiime2_config.toml')):
++site_config_dir('qiime2'), 'qiime2_config.toml')):
+ config_fp = fp_
+ # NOTE: These next two are dependent on us being in a conda
environment
+ # 4. Check in conda env
+--- qiime.orig/ci/recipe/meta.yaml
qiime/ci/recipe/meta.yaml
+@@ -35,7 +35,7 @@
+ - psutil
+ - flufl.lock
+ - parsl {{ parsl }}
+-- appdirs
++- platformdirs
+ - tomlkit
+ - lxml
+
=
debian/patches/series
=
@@ -1,3 +1,4 @@
+platformdirs
python3.8.patch
enable_decorator_5.patch
python3.10.patch
View it on GitLab:
https://salsa.debian.org/med-team/qiime/-/commit/9ac56e0a3dac450678efcafc3b4c6c51d7760778
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[med-svn] [Git][med-team/dcmtk] Pushed new tag debian/3.6.7-15
Santiago Vila pushed new tag debian/3.6.7-15 at Debian Med / dcmtk -- This project does not include diff previews in email notifications. View it on GitLab: https://salsa.debian.org/med-team/dcmtk/-/tree/debian/3.6.7-15 You're receiving this email because of your account on salsa.debian.org. ___ debian-med-commit mailing list debian-med-com...@alioth-lists.debian.net https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
