as the title! I installed data manager of samtools index builder. What a strange affair! SAM_to_BAM tool can find built-in reference genome started from tools panel, but can't find built-in reference genome in workflow editor~What a pity! I can't make a automatic workflow, there is meanningless using Galaxy.
What is your Galaxy version? 15.05? 17.05? Have you restarted Galaxy after installing your genomes?
I cloned Galaxy from github.com at Jul 24, 2015.Then, I changed it to master branch. Copy it to other place and run it. I have restarted it after installing genome.
发自我的 Windows Phone
发件人: Bjoern Gruening on Galaxy Biostar<mailto:notifications@biostars.org> 发送时间: 2015/8/3 18:01 收件人: kaji331@hotmail.com<mailto:kaji331@hotmail.com> 主题: [galaxy-biostar] C: SAM to BAM of samtools: It can't find built-in reference genome.
Bjoern Gruening posted the Comment: "SAM to BAM of samtools: It can't find built-in reference genome.":
What is your Galaxy version? 15.05? 17.05? Have you restarted Galaxy after installing your genomes?
If you moved Galaxy after running it the first time, there is likely a path problem. Try installing the distribution again in the location you wish to run it to see if that repairs the problems. Thanks, Jen, Galaxy team
Thanks very much~I didn't moved Galaxy after running it. I tried to reinstall it, but the problem was still there. I have to split my workflow to two part. Between them, I run SAM_to_BAM by myself in Galaxy.
Subject: [galaxy-biostar] C: SAM to BAM of samtools: It can't find built-in reference genome. From: notifications@biostars.org To: kaji331@hotmail.com Date: Thu, 6 Aug 2015 10:03:47 +0000
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User Jennifer Hillman Jackson wrote Comment: SAM to BAM of samtools: It can't find built-in reference genome.:
If you moved Galaxy after running it the first time, there is likely a path problem. Try installing the distribution again in the location you wish to run it to see if that repairs the problems. Thanks, Jen, Galaxy team
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