samtools_slice_bam/2.0.1 no options available
Hey all, I have a question about the samtools_slice_bam tool in the samtools suite. It seems the references variable remains empty after re-detecting metadata. I now tried sorting the bam in galaxy and manually in samtools, but no references coming up. I also ran a breakpoint in the binary.Bam.set_meta but it doesn't seem to be catched. Any ideas? Thx. Eric
Is this the right spot for this question? Or is it better to ask elsewhere? On Mon, 13 May 2019 at 09:50, Eric Kuyt <erickuyt@gmail.com> wrote:
Hey all,
I have a question about the samtools_slice_bam tool in the samtools suite.
It seems the references variable remains empty after re-detecting metadata. I now tried sorting the bam in galaxy and manually in samtools, but no references coming up.
I also ran a breakpoint in the binary.Bam.set_meta but it doesn't seem to be catched.
Any ideas? Thx.
Eric
Please, Remove my email fro the list Thank you, Paula Obter o Outlook para Android<https://aka.ms/ghei36> ________________________________ From: Eric Kuyt <erickuyt@gmail.com> Sent: Wednesday, May 22, 2019 9:33:57 AM To: galaxy-dev@lists.galaxyproject.org Subject: [galaxy-dev] Re: samtools_slice_bam/2.0.1 no options available Is this the right spot for this question? Or is it better to ask elsewhere? On Mon, 13 May 2019 at 09:50, Eric Kuyt <erickuyt@gmail.com> wrote:
Hey all,
I have a question about the samtools_slice_bam tool in the samtools suite.
It seems the references variable remains empty after re-detecting metadata. I now tried sorting the bam in galaxy and manually in samtools, but no references coming up.
I also ran a breakpoint in the binary.Bam.set_meta but it doesn't seem to be catched.
Any ideas? Thx.
Eric
___________________________________________________________ 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: http://galaxyproject.org/search/
Eric: I recommend https://help.galaxyproject.org/ for your question, it might reach a better audience there. Paula: I believe you can unsubscribe here: https://lists.galaxyproject.org/lists/galaxy-dev.lists.galaxyproject.org/ Regards, Martin On Wed, May 22, 2019 at 12:49 PM Paula Berrutti <paula_dandara@hotmail.com> wrote:
Please,
Remove my email fro the list
Thank you,
Paula
Obter o Outlook para Android<https://aka.ms/ghei36>
________________________________ From: Eric Kuyt <erickuyt@gmail.com> Sent: Wednesday, May 22, 2019 9:33:57 AM To: galaxy-dev@lists.galaxyproject.org Subject: [galaxy-dev] Re: samtools_slice_bam/2.0.1 no options available
Is this the right spot for this question? Or is it better to ask elsewhere?
On Mon, 13 May 2019 at 09:50, Eric Kuyt <erickuyt@gmail.com> wrote:
Hey all,
I have a question about the samtools_slice_bam tool in the samtools suite.
It seems the references variable remains empty after re-detecting metadata. I now tried sorting the bam in galaxy and manually in samtools, but no references coming up.
I also ran a breakpoint in the binary.Bam.set_meta but it doesn't seem to be catched.
Any ideas? Thx.
Eric
___________________________________________________________ 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: http://galaxyproject.org/search/ ___________________________________________________________ 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: http://galaxyproject.org/search/
participants (3)
-
Eric Kuyt -
Martin Čech -
Paula Berrutti