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/singularity-3.7.0.tar.gz"} ``` 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
Hi Luc, The version used in our playbook actually references one of our pull requests [1] and it looks like it references the most recent version. However, even the most recent playbook on GitHub uses the incorrect URL. Something must have changed since January. In the interim you could try editing the role locally. In the roles/cyverse-ansible.singularity/tasks/singularity-post-3.yml fie (or, or around line 47) change: url: "https://github.com/sylabs/singularity/releases/download/v{{singularity_version}}/singularity-{{singularity_version}}.tar.gz" to: url: https://github.com/sylabs/singularity/archive/refs/tags/v{{ singularity_version }}.tar.gz I haven't had a chance to actually test that, but it should pull the correct tarball. Cheers, Keith 1. https://github.com/galaxyproject/training-material/pull/2269
On May 7, 2021, at 9:24 AM, Luc Cornet <luc.cornet@uliege.be> wrote:
External Email - Use Caution
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://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fsylabs%2Fsingularity%2Freleases%2Fdownload%2Fv3.7.0%2Fsingularity-3.7.0.tar.gz&data=04%7C01%7Csuderman%40jhu.edu%7C43edc9785a1246f3b79a08d9116411fc%7C9fa4f438b1e6473b803f86f8aedf0dec%7C0%7C0%7C637559943775184956%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=DZ5eYAoCSsZHRgHl7BnnGwyER%2Fcyv2RuNCn5KEZG8nw%3D&reserved=0"} ```
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 ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: %(web_page_url)s
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Re, I found an explanation but not a solution : https://groups.google.com/a/lbl.gov/g/singularity/c/VN3WL5dBrUs This is most commonly due to downloading GitHub's auto generated 'source code' tarball, which contains all the files in the Git repository, but is not a git repo, nor contains the extra things added when we create a release. Check that you are using the tarball from: https://github.com/hpcng/singularity/releases/tag/v3.6.4 that is called `singularity-3.6.4.tar.gz` and not the `Source code (tar.gz) link`. There's also a sha256sums file there so you can check the hash of the tarball you have to make sure it is correct. The correct one does have the VERSION file referred to, and the vendored libraries etc. that are needed to build outside of a git clone. Best, Luc ------------ Luc Cornet, PhD Bio-informatician Mycology and Aerobiology Sciensano ----- Mail original ----- De: "Keith Suderman" <suderman@jhu.edu> À: "Luc Cornet" <luc.cornet@uliege.be> Cc: "HelpGalaxy" <galaxy-dev@lists.galaxyproject.org> Envoyé: Dimanche 9 Mai 2021 20:38:49 Objet: Re: [galaxy-dev] cyverse-ansible.singularity Hi Luc, The version used in our playbook actually references one of our pull requests [1] and it looks like it references the most recent version. However, even the most recent playbook on GitHub uses the incorrect URL. Something must have changed since January. In the interim you could try editing the role locally. In the roles/cyverse-ansible.singularity/tasks/singularity-post-3.yml fie (or, or around line 47) change: url: "https://github.com/sylabs/singularity/releases/download/v{{singularity_version}}/singularity-{{singularity_version}}.tar.gz" to: url: https://github.com/sylabs/singularity/archive/refs/tags/v{{ singularity_version }}.tar.gz I haven't had a chance to actually test that, but it should pull the correct tarball. Cheers, Keith 1. https://github.com/galaxyproject/training-material/pull/2269
On May 7, 2021, at 9:24 AM, Luc Cornet <luc.cornet@uliege.be> wrote:
External Email - Use Caution
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://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fsylabs%2Fsingularity%2Freleases%2Fdownload%2Fv3.7.0%2Fsingularity-3.7.0.tar.gz&data=04%7C01%7Csuderman%40jhu.edu%7C43edc9785a1246f3b79a08d9116411fc%7C9fa4f438b1e6473b803f86f8aedf0dec%7C0%7C0%7C637559943775184956%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=DZ5eYAoCSsZHRgHl7BnnGwyER%2Fcyv2RuNCn5KEZG8nw%3D&reserved=0"} ```
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 ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: %(web_page_url)s
To search Galaxy mailing lists use the unified search at: https://nam02.safelinks.protection.outlook.com/?url=http%3A%2F%2Fgalaxyproje...
participants (2)
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Keith Suderman -
Luc Cornet