Hi group, The galaxy stores the output of the job on files/043/dataset_*ID*.dat. I have two questions here.: 1) Can I find the ID of my output from the Galaxy history? I tried Edit Attributes, Annotations, tags but couldn't find it. 2) Can I rename my output while initiating the task? If I can how can I do this and what are the consequences. Thank you. Regards, Sachit
On Wed, Jul 24, 2013 at 5:21 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Hi group,
The galaxy stores the output of the job on files/043/dataset_ID.dat.
I have two questions here.:
1) Can I find the ID of my output from the Galaxy history? I tried Edit Attributes, Annotations, tags but couldn't find it.
Via the "i" icon of a history entry (information) you can see the datafile's full path which includes the ID.
2) Can I rename my output while initiating the task? If I can how can I do this and what are the consequences.
Yes, you can. Normally this is fine. (Note sure if there can be complications with meta-data normally added automatically by inspecting the finished file...) Peter
Hi, By "i" do you mean Edit attributes button? There are four sub-headings on that: Attributes, Convert format, Datatype and permissions but I can't see data file's full path on any of them. What's wrong? On Wed, Jul 24, 2013 at 3:05 PM, Peter Cock <p.j.a.cock@googlemail.com>wrote:
On Wed, Jul 24, 2013 at 5:21 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Hi group,
The galaxy stores the output of the job on files/043/dataset_ID.dat.
I have two questions here.:
1) Can I find the ID of my output from the Galaxy history? I tried Edit Attributes, Annotations, tags but couldn't find it.
Via the "i" icon of a history entry (information) you can see the datafile's full path which includes the ID.
2) Can I rename my output while initiating the task? If I can how can I do this and what are the consequences.
Yes, you can. Normally this is fine.
(Note sure if there can be complications with meta-data normally added automatically by inspecting the finished file...)
Peter
On Wed, Jul 24, 2013 at 10:35 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Hi,
By "i" do you mean Edit attributes button? There are four sub-headings on that: Attributes, Convert format, Datatype and permissions but I can't see data file's full path on any of them. What's wrong?
No, not the edit button. First click on a dataset's title so it expands. You should see a snippet of data etc plus a row of icons (save, information, reload in bottom left of the history, and tags and annotation bottom right). Peter
Yes, but unfortunately that didn't work too. I have already tried the solution you provided. I could edit the tags and annotations but it won't change the file name in my file system. The file is still named as * "dataset_43649.dat". * On Wed, Jul 24, 2013 at 3:52 PM, Peter Cock <p.j.a.cock@googlemail.com>wrote:
On Wed, Jul 24, 2013 at 10:35 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Hi,
By "i" do you mean Edit attributes button? There are four sub-headings on that: Attributes, Convert format, Datatype and permissions but I can't see data file's full path on any of them. What's wrong?
No, not the edit button.
First click on a dataset's title so it expands. You should see a snippet of data etc plus a row of icons (save, information, reload in bottom left of the history, and tags and annotation bottom right).
Peter
On Wed, Jul 24, 2013 at 11:15 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Yes, but unfortunately that didn't work too. I have already tried the solution you provided. I could edit the tags and annotations but it won't change the file name in my file system. The file is still named as "dataset_43649.dat".
You *cannot* rename the file on disk (without bypassing Galaxy and editing the database and renaming the file directly). This is by design - unless you are an administrator debugging something or a tool author you don't need to know the actual filename on disk. You *can* rename the description of the file as shown within the Galaxy interface (via edit attributes). Peter
Thanks Peter for clearing this out. On Wed, Jul 24, 2013 at 4:33 PM, Peter Cock <p.j.a.cock@googlemail.com>wrote:
On Wed, Jul 24, 2013 at 11:15 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Yes, but unfortunately that didn't work too. I have already tried the solution you provided. I could edit the tags and annotations but it won't change the file name in my file system. The file is still named as "dataset_43649.dat".
You *cannot* rename the file on disk (without bypassing Galaxy and editing the database and renaming the file directly). This is by design - unless you are an administrator debugging something or a tool author you don't need to know the actual filename on disk.
You *can* rename the description of the file as shown within the Galaxy interface (via edit attributes).
Peter
Sachit, that's a feature, not a bug. Changing the name of a file on disk being managed by Galaxy is unlikely to have a happy ending. The pencil icon allows changes to the history display name but the disk file name needs to be left alone. On Wed, Jul 24, 2013 at 8:15 PM, Sachit Adhikari < sachit.technerves@gmail.com> wrote:
Yes, but unfortunately that didn't work too. I have already tried the solution you provided. I could edit the tags and annotations but it won't change the file name in my file system. The file is still named as * "dataset_43649.dat". *
On Wed, Jul 24, 2013 at 3:52 PM, Peter Cock <p.j.a.cock@googlemail.com>wrote:
On Wed, Jul 24, 2013 at 10:35 AM, Sachit Adhikari <sachit.technerves@gmail.com> wrote:
Hi,
By "i" do you mean Edit attributes button? There are four sub-headings on that: Attributes, Convert format, Datatype and permissions but I can't see data file's full path on any of them. What's wrong?
No, not the edit button.
First click on a dataset's title so it expands. You should see a snippet of data etc plus a row of icons (save, information, reload in bottom left of the history, and tags and annotation bottom right).
Peter
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participants (3)
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Peter Cock -
Ross -
Sachit Adhikari