<![CDATA[diaAsm 组装]]>docker run -it --rm -v $PWD/dipasm/DipAsm:/wd/dipasm/DipAsm/ -e HOSTWD=$PWD/dipasm/DipAsm -v /var/run/docker.sock:/var/run/docker.sock -v /data_raid1/gene_data/data_archive/xbgy/pig_hic_hifi:/data dipasm:latest /bin/bash

python pipeline.py --hic-path /data/bgi --pb-path /data/hifi --sample pig --prefix asm

]]>http://an.forum.genostack.com/topic/136/diaasm-组装RSS for NodeSat, 13 Jun 2026 09:20:18 GMTTue, 15 Dec 2020 10:27:18 GMT60<![CDATA[Reply to diaAsm 组装 on Sat, 02 Jan 2021 09:39:06 GMT]]>bgzip没有安装　安装tabix会同时安装bgzip
apt install tabix

]]>http://an.forum.genostack.com/post/299http://an.forum.genostack.com/post/299Sat, 02 Jan 2021 09:39:06 GMT<![CDATA[Reply to diaAsm 组装 on Sun, 03 Jan 2021 00:25:20 GMT]]>time: cannot run /tools/biobambam2/2.0.87-release-20180301132713/x86_64-etch-linux-gnu/bin/bammarkduplicates2: No such file or directory
Command exited with non-zero status 127
0.00user 0.00system 0:00.00elapsed 0%CPU (0avgtext+0avgdata 1236maxresident)k
8inputs+8outputs (0major+31minor)pagefaults 0swaps
安装
biobambam2
Dockerfile中有该安装步骤　但是不知道镜像中没有该工具　用axel下载快一些

]]>http://an.forum.genostack.com/post/298http://an.forum.genostack.com/post/298Sun, 03 Jan 2021 00:25:20 GMT<![CDATA[Reply to diaAsm 组装 on Fri, 01 Jan 2021 17:31:33 GMT]]>W third_party/nucleus/io/sam_reader.cc:534] Could not read base quality scores m64061_200704_010207/21954972/ccs: Not found: Could not read base quality scores

替换fasta 为fastq

]]>http://an.forum.genostack.com/post/287http://an.forum.genostack.com/post/287Fri, 01 Jan 2021 17:31:33 GMT<![CDATA[Reply to diaAsm 组装 on Sat, 02 Jan 2021 15:52:38 GMT]]>sudo docker pull google/deepvariant:0.8.0
依赖deepvariant
修改dv.sh　gcr的无法下载

升级到最新版本

]]>http://an.forum.genostack.com/post/257http://an.forum.genostack.com/post/257Sat, 02 Jan 2021 15:52:38 GMT