Talk:Install a local mirror
Tabix test fails
Testing the custom tabix binary seems to fail. Here's the result:
$ ./tabix -f https://dl.dropboxusercontent.com/u/6959481/bed_hg19.gz chr7:27053199-27373567 [get_local_version] downloading the index file... $
If I download the gzip file and run tabix locally, it says the index needs rebuilding:
$ wget https://dl.dropboxusercontent.com/u/6959481/bed_hg19.gz ... $ ./tabix bed_hg19.gz chr7:27053199-27373567 [tabix] the index file either does not exist or is older than the vcf file. Please reindex.
If I force rebuilding the index on the local file, I get coordinates:
$ ./tabix -f bed_hg19.gz chr7:27053199-27373567 chr7 27132613 27135625 NM_153620 21009 - chr7 27132613 27135625 NM_005522 253 - ...
[ Xin ] The dropbox URLs are no longer working, need to find other HTTPS examples instead.
Archive for installing local browser seems to be inconsistent
It looks like the latest archive for the browser source code is missing some files and has some newer and older files:
$ wget http://epigenomegateway.wustl.edu/info/source/wubrowse.v33.tgz $ tar zxvf wubrowse.v33.tgz ...
images folder is missing, and other files like
base.js have different timestamps and content from the file
bwquery test appears to fail
bwquery is missing an argument?
# su www-data \u@\h:\w$ ./bwquery https://dl.dropboxusercontent.com/u/6959481/GSM469970.bigWig chr7 27053199 27373567 20 /tmp/udcCache/x bwquery: wrong arg \u@\h:\w$ more /tmp/udcCache/x /tmp/udcCache/x: No such file or directory
Possible typo in /usr/lib/trash?
sudo chown www-data.www-data /url/lib/trash
sudo chown www-data:www-data /usr/lib/trash
Possible type in Compile "bamliquidator" section?