Package: qiime Version: 1.3.0-2 Severity: normal Usertags: unige.ch-jmlab Hi there!
One colleague asked me to install CD-HIT [1][2] on the squeeze machine we have in the lab and I wdiscovered that there is no Debian package, but still it is referenced by qiime: ===== (base-sid)root@gismo:/# cat /etc/apt/sources.list deb http://cdn.debian.net/debian sid main contrib non-free (base-sid)root@gismo:/# apt-get update [...] (base-sid)root@gismo:/# apt-cache search cd-hit (base-sid)root@gismo:/# apt-cache search cdhit qiime - Quantitative Insights Into Microbial Ecology qiime-doc - Quantitative Insights Into Microbial Ecology (tutorial) (base-sid)root@gismo:/# apt-cache show qiime | grep -e cdhit -e cd-hit Recommends: blast2 | blast+-legacy, cd-hit, rdp-classifier, chimeraslayer, muscle, infernal, fasttree, ampliconnoise, python-matplotlib, python-numpy * OTU and representative set picking with uclust, cdhit, mothur, BLAST, (base-sid)root@gismo:/# apt-get install cd-hit Reading package lists... Done Building dependency tree Reading state information... Done Package cd-hit is not available, but is referred to by another package. This may mean that the package is missing, has been obsoleted, or is only available from another source E: Package 'cd-hit' has no installation candidate (base-sid)root@gismo:/# ===== This seems plain wrong to me... Thx, bye, Gismo / Luca Footnotes: [1] <http://weizhong-lab.ucsd.edu/cd-hit/> [2] what a wonderful *generic* name... -- System Information: Debian Release: wheezy/sid APT prefers unstable APT policy: (990, 'unstable'), (1, 'experimental') Architecture: amd64 (x86_64) Kernel: Linux 3.1.0-1-amd64 (SMP w/2 CPU cores) Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/dash
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