problem uploading via FTP server
Dear Galaxy, I am using Galaxy on my work for analysing a whole genome sequencing project. On the server I wanted to upload two BAM files (ALL and FL). With FileZilla I uploaded them on the FTP server because the files are around 20 GB. When I tried to upload them in Galaxy I can see them in the list from the FTP server and when I try to upload them they appear in the column on the right, but they stay gray and the comment 'job is waiting to run' stays present instead of 'job running' or 'completed'. Hopefully you can help me with this problem. With kind regards, Linda Slot Linda Slot, MSc AMC Amsterdam Department of Pathology, L2-115 Meibergdreef 9 1105 AZ Amsterdam The Netherlands tel.nr. 020-5665638 What to include in a question 1. Where you are using Galaxy: Main<http://wiki.g2.bx.psu.edu/Main>, other public, local, or cloud instance 2. End-user questions from Test<http://wiki.g2.bx.psu.edu/Test> are generally not sent/supported - Test is for breaking 3. If a local or cloud instance, the distribution or galaxy-central hg pull # 4. If on Main<http://wiki.g2.bx.psu.edu/Main>, date/time the initial and ru-run jobs were executed 5. If there is an example/issue, exact steps to reproduce 6. What troubleshooting steps (if a problem is being reported) you have tested out 7. If on Main<http://wiki.g2.bx.psu.edu/Main>, you may be asked for a shared history link. Use Options → Share or Publish, generate the link, and email it directly back off-list. Note the dataset #'s you have questions about. 8. IMPORTANT: Get the quickest answer for data questions by leaving all of the input and output datasets in the analysis thread in your shared history undeleted until we have written you back. Use Options → Show Deleted Datasets and click dataset links to undelete to recover datasets if necessary 9. Always reply-all unless sharing a private link ________________________________ AMC Disclaimer : http://www.amc.nl/disclaimer ________________________________
Linda, There was some maintenance performed this morning that may be related to job delays (a notice was on the Galaxy Main masthead most of the week). That is now complete. Was the FTP this morning and did FileZilla report that both were successful? Are you still having a problem with the history dataset load? Please let us know if you are still having problems, Jen Galaxy team On 9/14/12 3:02 AM, L.M. Slot wrote:
Dear Galaxy,
I am using Galaxy on my work for analysing a whole genome sequencing project.
On the server I wanted to upload two BAM files (ALL and FL). With FileZilla I uploaded them on the FTP server because the files are around 20 GB.
When I tried to upload them in Galaxy I can see them in the list from the FTP server and when I try to upload them they appear in the column on the right, but they stay gray and the comment 'job is waiting to run' stays present instead of 'job running' or 'completed'.
Hopefully you can help me with this problem.
With kind regards,
Linda Slot
Linda Slot, MSc
AMC Amsterdam
Department of Pathology, L2-115
Meibergdreef 9
1105 AZ Amsterdam
The Netherlands
tel.nr. 020-5665638
What to include in a question
1.Where you are using Galaxy: Main <http://wiki.g2.bx.psu.edu/Main>, other public, local, or cloud instance
2.End-user questions from Test <http://wiki.g2.bx.psu.edu/Test> are generally not sent/supported - /Test is for breaking/
3.If a local or cloud instance, the distribution or galaxy-central hg pull #
4.If on Main <http://wiki.g2.bx.psu.edu/Main>, date/time the initial and ru-run jobs were executed
5.If there is an example/issue, exact steps to reproduce
6.What troubleshooting steps (if a problem is being reported) you have tested out
7.If on Main <http://wiki.g2.bx.psu.edu/Main>, you may be asked for a shared history link. Use */Options /**/→/**/Share or Publish/*, generate the link, and email it directly back off-list. Note the dataset #'s you have questions about.
8.*IMPORTANT*: Get the /quickest answer/ for data questions by leaving *all* of the input and output datasets in the analysis thread in your shared history */undeleted/* until we have written you back. Use */Options /**/→/**/Show Deleted Datasets/*and click dataset links to */undelete/* to recover datasets if necessary
9.*Always */reply-all/*unless sharing a private link*
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Jennifer Jackson -
L.M. Slot