asifullah khan wrote:
Dear Officer,
I am a new user to assemble 75bp illumina solexa data. I have done single read illumina sequencing of my DNA of interest. it is a single file of about 370MB. The data, in file is initially in FASTQ format but letter the data arrangement become in some different kind of FASTq format inside the file. I want to convert the whole data in to simple FASTA format using GALAXY tools. I see the interesting videos on your site about using galaxy and it seems very interesting. But here i fail to upload my 370MB data file as an initial step. I am using 100Mbp LANE networking. Are you people preferring any other special network connection for uploading such huge files on GALAXY.? Kindly guide in this aspect. Moreover Kindly if possible then send me simple perl script and there command lines usage description for converting any format of FASTq in to FASTA.
Hi Asifullah, Have you retried the upload? Occasionally, uploads may be interrupted. We do try to handle this and mark the dataset in an error state, but sometimes Galaxy is not able to detect the failure, and it never changes out of the uploading state. As others have said, if you have an FTP or web site on which you can place the file, and then put the URL to that file in the URL/text box on the upload form, this method is more reliable. Unfortunately, browsers are not well suited for sending large files, especially if over a slow or flaky connection. --nate
Regards, Asifullah Khan Research officer, DNA sequencing Labs, ICCBS, University of Karachi, Pakistan.
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