Dear all,
this problem has been mentioned before by McDowell@vims.ed, but there was no solution so far posted. I'm using the current cloudman on Amazon AWS. When I download a fastq.gz file via an EBI-SRA ftp link using the "Upload File" function, although the file itself is loading to the /mnt/galaxy drive, at the same time /dev/xvda1 is filling up and at some point the download stops and says "[Errno 28] No space left on device". I've checked in the universe_wsgi.ini and the ftp upload path is set correctly to /mnt/galaxy/tmp/ftp.
Here's the df output: Filesystem 1K-blocks Used Available Use% Mounted on /dev/xvda1 10321208 9797012 0 100% / udev 8736124 8 8736116 1% /dev tmpfs 3497960 232 3497728 1% /run none 5120 0 5120 0% /run/lock none 8744896 0 8744896 0% /run/shm cgroup 8744896 0 8744896 0% /sys/fs/cgroup /dev/xvdb 423135208 207440 401433728 1% /mnt /dev/xvdf 104847360 22055572 82791788 22% /mnt/galaxy /dev/xvdg 733900800 685188288 48712512 94% /mnt/galaxyIndices
I'm also having another issue: when I delete files in the history in galaxy, they don't acually get deleted in the files/000/ folder. And galaxy is still showing them under "Using ..." in the total space used. So if I download a 3GB fastq file, then delete everything in the history, Using is still showing 3GB and the file is still there in the folder.
Could the two issues be connected? Are there maybe some rights missing for the galaxy instance to delete files?
Thanks in advance for any help Best Stanislas