4:30 a.m.
Hello All,
Is there a way to set "auto delete" some datafiles at the end of workflow run?
I'm asking this because it is sometimes useful to delete some outputs (say
intermediate files, .logs, etc), for example "auto delete" .sam file after
executing sam-to-bam tool, which would free-up lot of space. This is especially useful
when work with large number of samples.
Look forward to any comments/suggestions.
Best,
Raj.
________________________________
This e-mail contains PRIVILEGED AND CONFIDENTIAL INFORMATION intended solely for the use
of the addressee(s). If you are not the intended recipient, please notify the sender by
e-mail and delete the original message. Further, you are not to copy, disclose, or
distribute this e-mail or its contents to any other person and any such actions that are
unlawful. This e-mail may contain viruses. Ocimum Biosolutions has taken every reasonable
precaution to minimize this risk, but is not liable for any damage you may sustain as a
result of any virus in this e-mail. You should carry out your own virus checks before
opening the e-mail or attachment.
The information contained in this email and any attachments is confidential and may be
subject to copyright or other intellectual property protection. If you are not the
intended recipient, you are not authorized to use or disclose this information, and we
request that you notify us by reply mail or telephone and delete the original message from
your mail system.
OCIMUMBIO SOLUTIONS (P) LTD
4:38 a.m.
On Wed, Apr 4, 2012 at 12:30 PM, Praveen Raj Somarajan
<Praveen.s(a)ocimumbio.com> wrote:
Hello All,
Is there a way to set "auto delete" some datafiles at the end of workflow
run? I'm asking this because it is sometimes useful to delete some outputs
(say intermediate files, .logs, etc), for example "auto delete" .sam file
after executing sam-to-bam tool, which would free-up lot of space. This is
especially useful when work with large number of samples.
Look forward to any comments/suggestions.
Best,
Raj.
You're not the first to ask, e.g.
http://lists.bx.psu.edu/pipermail/galaxy-dev/2011-September/006801.html
It would be quite a popular feature I think - perhaps replacing the
current "auto hide" feature in workflows with "auto delete" or is
that
too drastic?
Peter
4:55 a.m.
exactly, something similar to "auto-hide" feature. This would be a nice option
to have, as the intermediate files consume huge amount of memory, especially in case of
NGS analysis.
- Raj
-----Original Message-----
From: Peter Cock [mailto:p.j.a.cock@googlemail.com]
Sent: Wednesday, April 04, 2012 5:09 PM
To: Praveen Raj Somarajan
Cc: galaxy-dev(a)lists.bx.psu.edu
Subject: Re: [galaxy-dev] Auto delete dataset after workflow run?
On Wed, Apr 4, 2012 at 12:30 PM, Praveen Raj Somarajan
<Praveen.s(a)ocimumbio.com> wrote:
Hello All,
Is there a way to set "auto delete" some datafiles at the end of workflow
run? I'm asking this because it is sometimes useful to delete some outputs
(say intermediate files, .logs, etc), for example "auto delete" .sam file
after executing sam-to-bam tool, which would free-up lot of space. This is
especially useful when work with large number of samples.
Look forward to any comments/suggestions.
Best,
Raj.
You're not the first to ask, e.g.
http://lists.bx.psu.edu/pipermail/galaxy-dev/2011-September/006801.html
It would be quite a popular feature I think - perhaps replacing the
current "auto hide" feature in workflows with "auto delete" or is
that
too drastic?
Peter
This e-mail contains PRIVILEGED AND CONFIDENTIAL INFORMATION intended solely for the use
of the addressee(s). If you are not the intended recipient, please notify the sender by
e-mail and delete the original message. Further, you are not to copy, disclose, or
distribute this e-mail or its contents to any other person and any such actions that are
unlawful. This e-mail may contain viruses. Ocimum Biosolutions has taken every reasonable
precaution to minimize this risk, but is not liable for any damage you may sustain as a
result of any virus in this e-mail. You should carry out your own virus checks before
opening the e-mail or attachment.
The information contained in this email and any attachments is confidential and may be
subject to copyright or other intellectual property protection. If you are not the
intended recipient, you are not authorized to use or disclose this information, and we
request that you notify us by reply mail or telephone and delete the original message from
your mail system.
OCIMUMBIO SOLUTIONS (P) LTD
5:25 a.m.
Is "auto-delete" feature available in Galaxy now? Or Is there an alternate way
to delete (or flag to delete) a dataset automatically after a workflow?
Best
Raj
-----Original Message-----
From: galaxy-dev-bounces(a)lists.bx.psu.edu [mailto:galaxy-dev-bounces@lists.bx.psu.edu] On
Behalf Of Praveen Raj Somarajan
Sent: Wednesday, April 04, 2012 5:25 PM
To: Peter Cock
Cc: galaxy-dev(a)lists.bx.psu.edu
Subject: Re: [galaxy-dev] Auto delete dataset after workflow run?
exactly, something similar to "auto-hide" feature. This would be a nice option
to have, as the intermediate files consume huge amount of memory, especially in case of
NGS analysis.
- Raj
-----Original Message-----
From: Peter Cock [mailto:p.j.a.cock@googlemail.com]
Sent: Wednesday, April 04, 2012 5:09 PM
To: Praveen Raj Somarajan
Cc: galaxy-dev(a)lists.bx.psu.edu
Subject: Re: [galaxy-dev] Auto delete dataset after workflow run?
On Wed, Apr 4, 2012 at 12:30 PM, Praveen Raj Somarajan
<Praveen.s(a)ocimumbio.com> wrote:
Hello All,
Is there a way to set "auto delete" some datafiles at the end of workflow
run? I'm asking this because it is sometimes useful to delete some outputs
(say intermediate files, .logs, etc), for example "auto delete" .sam file
after executing sam-to-bam tool, which would free-up lot of space. This is
especially useful when work with large number of samples.
Look forward to any comments/suggestions.
Best,
Raj.
You're not the first to ask, e.g.
http://lists.bx.psu.edu/pipermail/galaxy-dev/2011-September/006801.html
It would be quite a popular feature I think - perhaps replacing the
current "auto hide" feature in workflows with "auto delete" or is
that
too drastic?
Peter
This e-mail contains PRIVILEGED AND CONFIDENTIAL INFORMATION intended solely for the use
of the addressee(s). If you are not the intended recipient, please notify the sender by
e-mail and delete the original message. Further, you are not to copy, disclose, or
distribute this e-mail or its contents to any other person and any such actions that are
unlawful. This e-mail may contain viruses. Ocimum Biosolutions has taken every reasonable
precaution to minimize this risk, but is not liable for any damage you may sustain as a
result of any virus in this e-mail. You should carry out your own virus checks before
opening the e-mail or attachment.
The information contained in this email and any attachments is confidential and may be
subject to copyright or other intellectual property protection. If you are not the
intended recipient, you are not authorized to use or disclose this information, and we
request that you notify us by reply mail or telephone and delete the original message from
your mail system.
OCIMUMBIO SOLUTIONS (P) LTD
___________________________________________________________
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:
http://lists.bx.psu.edu/
This e-mail contains PRIVILEGED AND CONFIDENTIAL INFORMATION intended solely for the use
of the addressee(s). If you are not the intended recipient, please notify the sender by
e-mail and delete the original message. Further, you are not to copy, disclose, or
distribute this e-mail or its contents to any other person and any such actions that are
unlawful. This e-mail may contain viruses. Ocimum Biosolutions has taken every reasonable
precaution to minimize this risk, but is not liable for any damage you may sustain as a
result of any virus in this e-mail. You should carry out your own virus checks before
opening the e-mail or attachment.
The information contained in this email and any attachments is confidential and may be
subject to copyright or other intellectual property protection. If you are not the
intended recipient, you are not authorized to use or disclose this information, and we
request that you notify us by reply mail or telephone and delete the original message from
your mail system.
OCIMUMBIO SOLUTIONS (P) LTD
7:12 a.m.
On Wed, Apr 4, 2012 at 7:38 AM, Peter Cock <p.j.a.cock(a)googlemail.com> wrote:
It would be quite a popular feature I think - perhaps replacing the
current "auto hide" feature in workflows with "auto delete" or is
that
too drastic?
I think a workflow level option to set whether non-output datasets are
hidden or deleted (defaulting to deleted).
3246
days inactive
3489
days old
galaxy-dev@lists.galaxyproject.org
4 comments
3 participants
participants (3)
-
James Taylor -
Peter Cock -
Praveen Raj Somarajan