Package: ncbi-tools-bin Version: 6.1.20170106+dfsg2-6 Severity: wishlist Dear Maintainer,
Running vecscreen without the -d option fails, as does using -d UniVec_Core. The only is to use then -d /usr/share/ncbi/data/UniVec_Core. Thanks! Patrice $ vecscreen -i tmp/test.fna <HTML> <TITLE>VecScreen Search Results</TITLE> <BODY BGCOLOR="#FFFFFF" LINK="#0000FF" VLINK="#660099" ALINK="#660099"> <PRE><b>BLASTN 2.2.26 [Sep-21-2011]</b> <b><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Retrieve&list_uids =9254694&dopt=Citation">Reference</a>:</b> Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. <b>Query=</b> test (22 letters) <B> ****** No hits found ******</B> [vecscreen] FATAL ERROR: Database UniVec was not found or does not exist $ vecscreen -d UniVec_Core -i tmp/test.fna <HTML> <TITLE>VecScreen Search Results</TITLE> <BODY BGCOLOR="#FFFFFF" LINK="#0000FF" VLINK="#660099" ALINK="#660099"> <PRE><b>BLASTN 2.2.26 [Sep-21-2011]</b> <b><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Retrieve&list_uids =9254694&dopt=Citation">Reference</a>:</b> Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. <b>Query=</b> test (22 letters) <B> ****** No hits found ******</B> [vecscreen] FATAL ERROR: Database UniVec_Core was not found or does not exist $ vecscreen -d /usr/share/ncbi/data/UniVec_Core -i tmp/test.fna <HTML> <TITLE>VecScreen Search Results</TITLE> <BODY BGCOLOR="#FFFFFF" LINK="#0000FF" VLINK="#660099" ALINK="#660099"> <PRE><b>BLASTN 2.2.26 [Sep-21-2011]</b> <b><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Retrieve&list_uids =9254694&dopt=Citation">Reference</a>:</b> Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. <b>Query=</b> test (22 letters) <b>Database:</b> UniVec_Core (build 9.0) 2822 sequences; 536,102 total letters <B> ****** No hits found ******</B> </PRE> <PRE> Database: UniVec_Core (build 9.0) Posted date: Mar 9, 2015 3:05 PM Number of letters in database: 536,102 Number of sequences in database: 2822 Lambda K H 1.39 0.747 1.38 Gapped Lambda K H 1.39 0.747 1.38 Matrix: blastn matrix:1 -5 Gap Penalties: Existence: 3, Extension: 3 Number of Hits to DB: 2 Number of Sequences: 2822 Number of extensions: 2 Number of successful extensions: 2 Number of sequences better than 700.0: 0 Number of HSP's better than 700.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 1 Number of HSP's gapped (non-prelim): 0 length of query: 22 length of database: 536,102 effective HSP length: 10 effective length of query: 12 effective length of database: 507,882 effective search space: 6094584 effective search space used: 1750000000000 T: 0 A: 0 X1: 11 (22.0 bits) X2: 15 (30.0 bits) S1: 12 (24.4 bits) S2: 7 (14.5 bits) </PRE> </BODY> </HTML> -- System Information: Debian Release: 13.1 APT prefers stable-updates APT policy: (500, 'stable-updates'), (500, 'stable-security'), (500, 'proposed-updates'), (500, 'oldstable-updates'), (500, 'oldstable-security'), (500, 'oldstable-proposed-updates'), (500, 'stable'), (500, 'oldstable') Architecture: amd64 (x86_64) Kernel: Linux 6.16.3+deb13-amd64 (SMP w/128 CPU threads; PREEMPT) Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE not set Shell: /bin/sh linked to /usr/bin/dash Init: systemd (via /run/systemd/system) LSM: AppArmor: enabled Versions of packages ncbi-tools-bin depends on: ii libc6 2.41-12 ii libncbi6t64 6.1.20170106+dfsg2-6 ncbi-tools-bin recommends no packages. Versions of packages ncbi-tools-bin suggests: ii libvibrant6t64 6.1.20170106+dfsg2-6 ii ncbi-blast+ 2.16.0+ds-7 ii ncbi-cn3d 3.0.20170106+dfsg2-6 ii ncbi-tools-x11 6.1.20170106+dfsg2-6 -- no debconf information
