On Sun, Feb 12, 2012 at 10:28 PM, Arthur Zheng <haoz021(a)gmail.com&gt; wrote: > Hi, > > I have downloaded and installed a local instance of galaxy on the linux > server using my user account according to here: > http://main.g2.bx.psu.edu/ > > Then I ran the following command: >> sh run.sh > and accessed galaxy through the local firefox browser on the server > http://localhost:8080 > > Now I am trying to use some NGS files for FASTQ Groomer. Each file is in the > server disk already, but very large (~8G each). > I was not able to use the "upload file from your computer" function under > the "Get Data" tab (maybe because each file is too large). > > What am I supposed to do? > > Thank you! > > Arthur The method you tried "uploads" the file from your computer back to itself - making a copy as it goes with lots of overhead. You should probably consider the procedure here which allows you to avoid even making a copy on disk but point at the existing files already on the server: http://wiki.g2.bx.psu.edu/Admin/Data%20Libraries/Uploading%20Library%20Files Peter

On Sun, Feb 12, 2012 at 4:34 PM, Peter Cock <p.j.a.cock(a)googlemail.com&gt; wrote: > > On Sun, Feb 12, 2012 at 10:28 PM, Arthur Zheng <haoz021(a)gmail.com&gt; wrote: > > Hi, > > > > I have downloaded and installed a local instance of galaxy on the > > linux server using my user account according to here: > > http://main.g2.bx.psu.edu/ > > > > Then I ran the following command: > >> sh run.sh > > and accessed galaxy through the local firefox browser on the server > > http://localhost:8080 > > > > Now I am trying to use some NGS files for FASTQ Groomer. Each file > > is in the server disk already, but very large (~8G each). > > I was not able to use the "upload file from your computer" function > > under the "Get Data" tab (maybe because each file is too large). > > > > What am I supposed to do? > > > > Thank you! > > > > Arthur > > The method you tried "uploads" the file from your computer back to > itself - making a copy as it goes with lots of overhead. You should > probably consider the procedure here which allows you to avoid even > making a copy on disk but point at the existing files already on the > server: > > http://wiki.g2.bx.psu.edu/Admin/Data%20Libraries/Uploading%20Library% > 20Files > > Peter Hi Peter, I have followed the link you provided and selected the option "Upload directory of files". Now my NGS data are in the library, and I am wondering how I can feed them to FASTQ Groomer? Thanks! Arthur