June 2021 Galaxy Newsletter: All about GCC2021!
by Beatriz Serrano-Solano
Hello all,
Welcome to the June 2021 edition of Galaxy News. GCC2021 is upon us, *with
deadlines and events starting this month
<https://galaxyproject.org/news/2021-06-galaxy-update/#featured-news>*.
It's not too late to register (register by June 8 and get 50% off) and to
submit Poster/Demo abstracts. Training week starts on June 28. We also
started getting confirmations from speakers and are *publishing confirmed
presenters
<https://galaxyproject.org/news/2021-06-galaxy-update/#featured-news>* as
we get them. We are also pleased to *announce our first three sponsors for
GCC2021: F1000Research, GigaScience Press and KWS-SAAT
<https://galaxyproject.org/news/2021-06-galaxy-update/#gcc2021-sponsorships>*
.
In addition to GCC news, we also released the *James Taylor birthday video
<https://galaxyproject.org/news/2021-06-galaxy-update/#community-news>*,
and have several *new open positions
<https://galaxyproject.org/news/2021-06-galaxy-update/#community-news>*,
lots of *event news
<https://galaxyproject.org/news/2021-06-galaxy-update/#event-news>*, *Galaxy
platform news
<https://galaxyproject.org/news/2021-06-galaxy-update/#galaxy-platforms-news>*,
*Galactic blog posts
<https://galaxyproject.org/news/2021-06-galaxy-update/#galactic-blog-activity>*,
*training and doc updates
<https://galaxyproject.org/news/2021-06-galaxy-update/#doc-hub-and-trainin...>*,
recent *open-access Galaxy-related publications
<https://galaxyproject.org/news/2021-06-galaxy-update/#publications>*, and *new
releases <https://galaxyproject.org/news/2021-06-galaxy-update/#releases>.*
As always, thanks for using Galaxy,
Dave Clements and Beatriz Serrano-Solano, Editors
PS: Subscribe to the Galaxy Announce mailing list
<https://lists.galaxyproject.org/?count=100&all-lists=> to receive an email
whenever this newsletter is published.
--
Dr Beatriz Serrano-Solano (she/her)
<https://www.hrc.org/resources/talking-about-pronouns-in-the-workplace>
Bioinformatics Group
Dept. Computer Science
Albert-Ludwigs-Universität Freiburg
Georges-Köhler-Allee, 106
70110 Freiburg
Germany
7 months, 4 weeks
rabbitmq erlang-crypto
by Luc Cornet
Dear all,
I have a strange error with rabbitmq on ubuntu 20.04. The playbook was working previously on this OS but now I have this error:
TASK [usegalaxy_eu.rabbitmq : install rabbitmq] ****************************************************************************************************************************
task path: /home/galaxyluc/galaxy/roles/usegalaxy_eu.rabbitmq/tasks/Debian/install.yml:23
<galaxy.inbios.uliege.be> ESTABLISH LOCAL CONNECTION FOR USER: root
<galaxy.inbios.uliege.be> EXEC /bin/sh -c 'echo ~root && sleep 0'
<galaxy.inbios.uliege.be> EXEC /bin/sh -c '( umask 77 && mkdir -p "` echo /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644 `" && echo ansible-tmp-1620999798.916904-12818219648644="` echo /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644 `" ) && sleep 0'
Using module file /usr/lib/python3/dist-packages/ansible/modules/packaging/os/apt.py
<galaxy.inbios.uliege.be> PUT /root/.ansible/tmp/ansible-local-1239270zkwwo8m/tmpd5o4vaj2 TO /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644/AnsiballZ_apt.py
<galaxy.inbios.uliege.be> EXEC /bin/sh -c 'chmod u+x /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644/ /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644/AnsiballZ_apt.py && sleep 0'
<galaxy.inbios.uliege.be> EXEC /bin/sh -c '/usr/bin/python3 /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644/AnsiballZ_apt.py && sleep 0'
<galaxy.inbios.uliege.be> EXEC /bin/sh -c 'rm -f -r /root/.ansible/tmp/ansible-tmp-1620999798.916904-12818219648644/ > /dev/null 2>&1 && sleep 0'
fatal: [galaxy.inbios.uliege.be]: FAILED! => {
"changed": false,
"invocation": {
"module_args": {
"allow_unauthenticated": false,
"autoclean": false,
"autoremove": false,
"cache_valid_time": 0,
"deb": "/usr/src/rabbitmq-server-3.8.9-1.deb",
"default_release": null,
"dpkg_options": "force-confdef,force-confold",
"force": false,
"force_apt_get": false,
"install_recommends": null,
"only_upgrade": false,
"package": null,
"policy_rc_d": null,
"purge": false,
"state": "present",
"update_cache": null,
"upgrade": null
}
},
"msg": "Dependency is not satisfiable: erlang-crypto (< 1:24.0)|esl-erlang (< 1:24.0)\n"
}
Does anyone have any idea how to solve this ?
Thanks,
Luc
------------
Luc Cornet, PhD
Bio-informatician
Mycology and Aerobiology
Sciensano
8 months, 1 week
cyverse-ansible.singularity
by Luc Cornet
Hello all,
I have a problem with singularity while installing galaxy with ansible.
```
ASK [cyverse-ansible.singularity : Ubuntu package installation for v3.0 or newer] *************************************************************************
ok: [galaxy.inbios.uliege.be]
TASK [cyverse-ansible.singularity : CentOS package installation for v3.0 or newer] *************************************************************************
skipping: [galaxy.inbios.uliege.be]
TASK [cyverse-ansible.singularity : check if singularity binary exists] ************************************************************************************
ok: [galaxy.inbios.uliege.be]
TASK [cyverse-ansible.singularity : Obtain current binary version] *****************************************************************************************
skipping: [galaxy.inbios.uliege.be]
TASK [cyverse-ansible.singularity : download the singularity release] **************************************************************************************
fatal: [galaxy.inbios.uliege.be]: FAILED! => {"changed": false, "dest": "/tmp/singularity-3.7.0.tar.gz", "elapsed": 5, "msg": "Request failed", "response": "HTTP Error 404: Not Found", "status_code": 404, "url": "https://github.com/sylabs/singularity/releases/download/v3.7.0/singularit..."}
```
The URL for singularity has changed, Do you know how can i fix that ?
Maybe a more recent version of :
```
- src: cyverse-ansible.singularity
version: 048c4f178077d05c1e67ae8d9893809aac9ab3b7
```
Thanks for the help,
Luc
------------
Luc Cornet, PhD
Bio-informatician
Mycology and Aerobiology
Sciensano
8 months, 2 weeks
May 2021 Galaxy Newsletter: GCC2021 Deadlines Extended
by Dave Clements
Hello all,
*The May 2021 edition of Galaxy News
<https://galaxyproject.org/news/2021-05-galaxy-update/> is out! *
The big news is that *several deadlines for the 2021 Galaxy Community
Conference
<https://galaxyproject.org/news/2021-05-galaxy-update/#community-news> have
been extended, and the deadline for submitting James Taylor videos
<https://galaxyproject.org/news/2021-05-galaxy-update/#featured-news> has
been extended to this Friday.*
And there are other upcoming deadlines too:
- *ISMB/ECCB and BOSC 2021 abstracts
<https://galaxyproject.org/news/2021-05-galaxy-update/#event-news> are due
this Thursday.*
- *Apply for the Galaxy Australia Variant Calling Workshops
<https://galaxyproject.org/news/2021-05-galaxy-update/#event-news> by May
12.*
We also have
- *open positions
<https://galaxyproject.org/news/2021-05-galaxy-update/#community-news>*
- *webinars, CoFests, workshops, community meetups, and other events
<https://galaxyproject.org/news/2021-05-galaxy-update/#event-news>*,
- news about *public Galaxy platforms
<https://galaxyproject.org/news/2021-05-galaxy-update/#galaxy-platforms-news>*
,
- recent *blog posts
<https://galaxyproject.org/news/2021-05-galaxy-update/#galactic-blog-activity>*
,
- *training and doc updates
<https://galaxyproject.org/news/2021-05-galaxy-update/#doc-hub-and-trainin...>*
,
- recent *open-access Galaxy-related publications
<https://galaxyproject.org/news/2021-05-galaxy-update/#publications>*,
and
- *new releases
<https://galaxyproject.org/news/2021-05-galaxy-update/#releases>.*
As always, thanks for using Galaxy,
Dave Clements and Beatriz Serrano-Solano, Editors
--
https://galaxyproject.org/
8 months, 3 weeks