6d36881dee4bc2a4256614638aec4dddf3c26f44 markd Wed Jan 27 19:33:09 2021 -0800 recommend creating index with -stepSize=5 diff --git src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html index e860cd4..41c25c8 100755 --- src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html +++ src/hg/htdocs/goldenPath/help/hubQuickStartAssembly.html @@ -139,31 +139,31 @@ <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> The following commands are an example on how to make the gfidx files: <pre> -gfServer index myGenome.untrans.gfidx myGenome.2bit +gfServer index -stepSize=5 myGenome.untrans.gfidx myGenome.2bit gfServer index -trans myGenome.trans.gfidx myGenome.2bit </pre> </p> <p> The files names in the form: <pre> $rootdir/jillLab/myGenome.2bit $rootdir/jillLab/myGenome.untrans.gfidx $rootdir/jillLab/myGenome.trans.gfidx </pre> </p> <p> For a more deeply nest directory, for instance, the following NCBI