用Aspera connect从NCBI上下载SRA格式数据
用Aspera connect从NCBI上下载SRA格式数据：
一. window
1.下载地址：
http://downloads.asperasoft.com/connect2/
2.安装很简单，略
3.下载：
数据下载地址：
http://www.ncbi.nlm.nih.gov/projects/faspftp/1000genomes/
其他地址：
http://www.1000genomes.org/aspera
可参考【3】
二 linux
1.下载：
curl -O http://download.asperasoft.com/download/sw/connect/3.6.1/aspera-connect-3.6.1.110647-linux-64.tar.gz tar zxf asper-commect-3.6.1.110647-linux.tar.gz
2.安装
sh aspera-connect-2.4.7.37118-linux-64.sh 或者<pre name="code" class="plain">./aspera-connect-3.6.1.110647-linux-64.sh*
3.加入path：
hadoop@Mcnode1:~/.aspera/connect/bin$ vi /etc/profile ...... export ascp_home=/home/hadoop/.aspera/connect export PATH=$HOME/bin:$JAVA_HOME/bin:$JAVA_HOME/jre/bin:$ascp_home/bin:$PATH
hadoop@Mcnode1:~/.aspera/connect/bin$ source /etc/profile
4.
三 prefetch直接调用ascp，没有安装ascp之前直接用http
prefetch -v DRR047094
hadoop@Mcnode1:~/.aspera/connect/bin$ prefetch -v DRR047094 Maximum file size download limit is 20,971,520KB 2016-01-13T13:24:46 prefetch.2.5.5: Using 'ascp' 2016-01-13T13:24:46 prefetch.2.5.5: Using 'ascp' 2016-01-13T13:24:46 prefetch.2.5.5: Using '/home/hadoop/.aspera/connect/bin/ascp' 2016-01-13T13:25:06 prefetch.2.5.5: 1) Downloading 'DRR047094'... 2016-01-13T13:25:06 prefetch.2.5.5: Downloading via fasp... /home/hadoop/.aspera/connect/bin/ascp /home/hadoop/.aspera/connect/bin/ascp -i /home/hadoop/.aspera/connect/etc/asperaweb_id_dsa.openssh -pQTk1 -l 1000m [email protected]:data/sracloud/srapub/DRR047094 /home/hadoop/cloud/adam/xubo/data/down-sratool/sra/DRR047094.sra.tmp.94178.tmp 2016-01-13T13:25:44 prefetch.2.5.5 err: process failed while waiting process - ascp failed with 1 /home/hadoop/.aspera/connect/bin/ascp /home/hadoop/.aspera/connect/bin/ascp -i /home/hadoop/.aspera/connect/etc/asperaweb_id_dsa.openssh -pQTk1 -l 1000m [email protected]:data/sracloud/srapub/DRR047094 /home/hadoop/cloud/adam/xubo/data/down-sratool/sra/DRR047094.sra.tmp.94178.tmp 2016-01-13T13:26:15 prefetch.2.5.5 err: process failed while waiting process - ascp failed with 1 2016-01-13T13:26:15 prefetch.2.5.5: fasp download failed 2016-01-13T13:26:15 prefetch.2.5.5: Downloading via http... 2016-01-13T13:26:19 prefetch.2.5.5: http://sra-download.ncbi.nlm.nih.gov/srapub/DRR047094 -> /home/hadoop/cloud/adam/xubo/data/down-sratool/sra/DRR047094.sra.tmp.94178.tmp
数据列表下载：
ascp问题
还有list下载
没解决
参考：
【1】 http://www.plob.org/2012/07/31/3013.html
【2】 https://indexofire.gitbooks.io/notebook_of_analyzing_pathogen_ngs_data/content/chapter_1/sra.html
【3】http://boyun.sh.cn/bio/?p=1933
【4】http://www.bbioo.com/lifesciences/40-115994-1.html
【5】http://blog.163.com/lixuenan200806@126/blog/static/36907807201461192615635/