Mercurial > repos > devteam > tophat_fusion_post
comparison tophat_fusion_post.xml @ 9:7d6658b2531a
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author | devteam |
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date | Thu, 20 Feb 2014 13:19:38 -0500 |
parents | 052b357bb2b8 |
children | 33aafd74bb31 |
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8:b5955d7050d7 | 9:7d6658b2531a |
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18 ln -s ${blast_db_path}/refGene.txt .; | 18 ln -s ${blast_db_path}/refGene.txt .; |
19 ln -s ${blast_db_path}/ensGene.txt .; | 19 ln -s ${blast_db_path}/ensGene.txt .; |
20 ln -s ${blast_db_path}/mcl .; | 20 ln -s ${blast_db_path}/mcl .; |
21 | 21 |
22 ## Run tophat-fusion-post | 22 ## Run tophat-fusion-post |
23 tophat-fusion-post -p 22 | 23 tophat-fusion-post -p \${GALAXY_SLOTS:-4} |
24 --num-fusion-reads $num_fusion_reads --num-fusion-pairs $num_fusion_pairs --num-fusion-both $num_fusion_both --fusion-read-mismatches $fusion_read_mismatches --fusion-multireads $fusion_multireads | 24 --num-fusion-reads $num_fusion_reads --num-fusion-pairs $num_fusion_pairs --num-fusion-both $num_fusion_both --fusion-read-mismatches $fusion_read_mismatches --fusion-multireads $fusion_multireads |
25 #if str($is_human) == 'No': | 25 #if str($is_human) == 'No': |
26 --non-human | 26 --non-human |
27 #end if | 27 #end if |
28 | 28 |