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299 bytes removed
, 17:53, 17 April 2013
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| # The easiest way to get the data: | | # The easiest way to get the data: |
| <b>cd /tmp</b> | | <b>cd /tmp</b> |
− | <b>wget ftp://share.sph.umich.edu/gotcloud/hs37-db132.tar.gz</b> | + | <b>wget ftp://share.sph.umich.edu/gotcloud/h37-db135.tgz</b> |
| | | |
| # Another way: | | # Another way: |
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| ftp> <b>cd gotcloud</b> | | ftp> <b>cd gotcloud</b> |
| 250 Directory successfully changed. | | 250 Directory successfully changed. |
− | ftp> <b>mget hs37-db132.tar.gz</b> | + | ftp> <b>mget h37-db135.tar.gz</b> |
| ftp> <b>quit</b> | | ftp> <b>quit</b> |
| 221 Goodbye. | | 221 Goodbye. |
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| <b>mkdir -p /usr/local/gotcloud.ref</b> # Where you want the files installed | | <b>mkdir -p /usr/local/gotcloud.ref</b> # Where you want the files installed |
| <b>cd /usr/local/gotcloud.ref</b> | | <b>cd /usr/local/gotcloud.ref</b> |
− | <b>tar xzvf hs37-db132.tar.gz</b> | + | <b>tar xzf h37-db135.tar.gz</b> |
− | ref/
| + | <b>rm -f h37-db135.tar.gz</b> |
− | ref/hs37d5.fa.fai
| |
− | ref/metabochip.batch2.broken.b37.chr2.plink.MAF01.bed
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− | ref/hs37d5-bs.umfa
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− | ref/metabochip.batch2.broken.b37.chr2.plink.MAF01.fam
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− | ref/dbsnp_132.b37.vcf.gz.tbi
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− | ref/dbsnp_132.UCSC.coordinates.tbl
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− | [lines deleted]
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− | <b>rm -f hs37-db132.tar.gz</b> | |
| </code> | | </code> |
| | | |
− | Note this path as you will need to set the variable '''REF_DIR''' in the configuration file or options | + | Note this path as you will need to set the variable '''REF_DIR''' in the configuration file for gotcloud. |
− | '''gen_biopipeline.pl''' and '''umake.pl'''.
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− | | |
| | | |
| = Using Your own Reference Files = | | = Using Your own Reference Files = |