88485cfa7f13affa28ec5765fe9b2db90cce42b6 markd Tue Dec 8 21:02:15 2020 -0800 hgPcr working diff --git src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html index f9d5a93..95ac977 100755 --- src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html +++ src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html @@ -132,30 +132,31 @@ </p> A dynamic BLAT server is specified with the <code>dynamic</code> argument to the <code>blat</code> or <code>transBlat</code> specification, followed by the <code>gfServer</code> dynamic root-relative path of the directory containing the <code>2bit</code> and <code>gfidx</code> files, named in the form <ul> <li><code><em>myGenome</em>.2bit</code> - two-bit format genomic sequence <li><code><em>myGenome</em>.untrans.gfidx</code> - untranslated index, built by <code>gfServer index</code> <li><code><em>myGenome</em>.trans.gfidx</code> - translated index, built by <code>gfServer -trans index</code> </ul> <p> For example: <pre> transBlat yourLab.yourInstitution.edu 4096 dynamic jillLab blat yourLab.yourInstitution.edu 4096 dynamic jillLab + isPcr yourLab.yourInstitution.edu 4096 dynamic jillLab </pre> </p> <p> for files names in the form: <pre> $rootdir/jillLab/myGenome.2bit $rootdir/jillLab/myGenome.untrans.gfidx $rootdir/jillLab/myGenome.trans.gfidx </pre> </p> <p> For for more deeply nest directory, for instance, for instance following the NCBI convention: <pre>