head 1.4; access; symbols pkgsrc-2023Q4:1.4.0.48 pkgsrc-2023Q4-base:1.4 pkgsrc-2023Q3:1.4.0.46 pkgsrc-2023Q3-base:1.4 pkgsrc-2023Q2:1.4.0.44 pkgsrc-2023Q2-base:1.4 pkgsrc-2023Q1:1.4.0.42 pkgsrc-2023Q1-base:1.4 pkgsrc-2022Q4:1.4.0.40 pkgsrc-2022Q4-base:1.4 pkgsrc-2022Q3:1.4.0.38 pkgsrc-2022Q3-base:1.4 pkgsrc-2022Q2:1.4.0.36 pkgsrc-2022Q2-base:1.4 pkgsrc-2022Q1:1.4.0.34 pkgsrc-2022Q1-base:1.4 pkgsrc-2021Q4:1.4.0.32 pkgsrc-2021Q4-base:1.4 pkgsrc-2021Q3:1.4.0.30 pkgsrc-2021Q3-base:1.4 pkgsrc-2021Q2:1.4.0.28 pkgsrc-2021Q2-base:1.4 pkgsrc-2021Q1:1.4.0.26 pkgsrc-2021Q1-base:1.4 pkgsrc-2020Q4:1.4.0.24 pkgsrc-2020Q4-base:1.4 pkgsrc-2020Q3:1.4.0.22 pkgsrc-2020Q3-base:1.4 pkgsrc-2020Q2:1.4.0.20 pkgsrc-2020Q2-base:1.4 pkgsrc-2020Q1:1.4.0.16 pkgsrc-2020Q1-base:1.4 pkgsrc-2019Q4:1.4.0.18 pkgsrc-2019Q4-base:1.4 pkgsrc-2019Q3:1.4.0.14 pkgsrc-2019Q3-base:1.4 pkgsrc-2019Q2:1.4.0.12 pkgsrc-2019Q2-base:1.4 pkgsrc-2019Q1:1.4.0.10 pkgsrc-2019Q1-base:1.4 pkgsrc-2018Q4:1.4.0.8 pkgsrc-2018Q4-base:1.4 pkgsrc-2018Q3:1.4.0.6 pkgsrc-2018Q3-base:1.4 pkgsrc-2018Q2:1.4.0.4 pkgsrc-2018Q2-base:1.4 pkgsrc-2018Q1:1.4.0.2 pkgsrc-2018Q1-base:1.4 pkgsrc-2017Q4:1.3.0.72 pkgsrc-2017Q4-base:1.3 pkgsrc-2017Q3:1.3.0.70 pkgsrc-2017Q3-base:1.3 pkgsrc-2017Q2:1.3.0.66 pkgsrc-2017Q2-base:1.3 pkgsrc-2017Q1:1.3.0.64 pkgsrc-2017Q1-base:1.3 pkgsrc-2016Q4:1.3.0.62 pkgsrc-2016Q4-base:1.3 pkgsrc-2016Q3:1.3.0.60 pkgsrc-2016Q3-base:1.3 pkgsrc-2016Q2:1.3.0.58 pkgsrc-2016Q2-base:1.3 pkgsrc-2016Q1:1.3.0.56 pkgsrc-2016Q1-base:1.3 pkgsrc-2015Q4:1.3.0.54 pkgsrc-2015Q4-base:1.3 pkgsrc-2015Q3:1.3.0.52 pkgsrc-2015Q3-base:1.3 pkgsrc-2015Q2:1.3.0.50 pkgsrc-2015Q2-base:1.3 pkgsrc-2015Q1:1.3.0.48 pkgsrc-2015Q1-base:1.3 pkgsrc-2014Q4:1.3.0.46 pkgsrc-2014Q4-base:1.3 pkgsrc-2014Q3:1.3.0.44 pkgsrc-2014Q3-base:1.3 pkgsrc-2014Q2:1.3.0.42 pkgsrc-2014Q2-base:1.3 pkgsrc-2014Q1:1.3.0.40 pkgsrc-2014Q1-base:1.3 pkgsrc-2013Q4:1.3.0.38 pkgsrc-2013Q4-base:1.3 pkgsrc-2013Q3:1.3.0.36 pkgsrc-2013Q3-base:1.3 pkgsrc-2013Q2:1.3.0.34 pkgsrc-2013Q2-base:1.3 pkgsrc-2013Q1:1.3.0.32 pkgsrc-2013Q1-base:1.3 pkgsrc-2012Q4:1.3.0.30 pkgsrc-2012Q4-base:1.3 pkgsrc-2012Q3:1.3.0.28 pkgsrc-2012Q3-base:1.3 pkgsrc-2012Q2:1.3.0.26 pkgsrc-2012Q2-base:1.3 pkgsrc-2012Q1:1.3.0.24 pkgsrc-2012Q1-base:1.3 pkgsrc-2011Q4:1.3.0.22 pkgsrc-2011Q4-base:1.3 pkgsrc-2011Q3:1.3.0.20 pkgsrc-2011Q3-base:1.3 pkgsrc-2011Q2:1.3.0.18 pkgsrc-2011Q2-base:1.3 pkgsrc-2011Q1:1.3.0.16 pkgsrc-2011Q1-base:1.3 pkgsrc-2010Q4:1.3.0.14 pkgsrc-2010Q4-base:1.3 pkgsrc-2010Q3:1.3.0.12 pkgsrc-2010Q3-base:1.3 pkgsrc-2010Q2:1.3.0.10 pkgsrc-2010Q2-base:1.3 pkgsrc-2010Q1:1.3.0.8 pkgsrc-2010Q1-base:1.3 pkgsrc-2009Q4:1.3.0.6 pkgsrc-2009Q4-base:1.3 pkgsrc-2009Q3:1.3.0.4 pkgsrc-2009Q3-base:1.3 pkgsrc-2009Q2:1.3.0.2 pkgsrc-2009Q2-base:1.3 pkgsrc-2009Q1:1.2.0.48 pkgsrc-2009Q1-base:1.2 pkgsrc-2008Q4:1.2.0.46 pkgsrc-2008Q4-base:1.2 pkgsrc-2008Q3:1.2.0.44 pkgsrc-2008Q3-base:1.2 cube-native-xorg:1.2.0.42 cube-native-xorg-base:1.2 pkgsrc-2008Q2:1.2.0.40 pkgsrc-2008Q2-base:1.2 cwrapper:1.2.0.38 pkgsrc-2008Q1:1.2.0.36 pkgsrc-2008Q1-base:1.2 pkgsrc-2007Q4:1.2.0.34 pkgsrc-2007Q4-base:1.2 pkgsrc-2007Q3:1.2.0.32 pkgsrc-2007Q3-base:1.2 pkgsrc-2007Q2:1.2.0.30 pkgsrc-2007Q2-base:1.2 pkgsrc-2007Q1:1.2.0.28 pkgsrc-2007Q1-base:1.2 pkgsrc-2006Q4:1.2.0.26 pkgsrc-2006Q4-base:1.2 pkgsrc-2006Q3:1.2.0.24 pkgsrc-2006Q3-base:1.2 pkgsrc-2006Q2:1.2.0.22 pkgsrc-2006Q2-base:1.2 pkgsrc-2006Q1:1.2.0.20 pkgsrc-2006Q1-base:1.2 pkgsrc-2005Q4:1.2.0.18 pkgsrc-2005Q4-base:1.2 pkgsrc-2005Q3:1.2.0.16 pkgsrc-2005Q3-base:1.2 pkgsrc-2005Q2:1.2.0.14 pkgsrc-2005Q2-base:1.2 pkgsrc-2005Q1:1.2.0.12 pkgsrc-2005Q1-base:1.2 pkgsrc-2004Q4:1.2.0.10 pkgsrc-2004Q4-base:1.2 pkgsrc-2004Q3:1.2.0.8 pkgsrc-2004Q3-base:1.2 pkgsrc-2004Q2:1.2.0.6 pkgsrc-2004Q2-base:1.2 pkgsrc-2004Q1:1.2.0.4 pkgsrc-2004Q1-base:1.2 pkgsrc-2003Q4:1.2.0.2 pkgsrc-2003Q4-base:1.2 pkgsrc-base:1.1.1.1 TNF:1.1.1; locks; strict; comment @# @; 1.4 date 2018.01.01.22.29.18; author rillig; state Exp; branches; next 1.3; commitid 0WRi40zz4tz6VdlA; 1.3 date 2009.06.14.17.34.33; author joerg; state Exp; branches; next 1.2; 1.2 date 2003.10.07.18.20.15; author jschauma; state Exp; branches; next 1.1; 1.1 date 2003.09.30.02.11.06; author jschauma; state Exp; branches 1.1.1.1; next ; 1.1.1.1 date 2003.09.30.02.11.06; author jschauma; state Exp; branches; next ; desc @@ 1.4 log @Sort PLIST files. Unsorted entries in PLIST files have generated a pkglint warning for at least 12 years. Somewhat more recently, pkglint has learned to sort PLIST files automatically. Since pkglint 5.4.23, the sorting is only done in obvious, simple cases. These have been applied by running: pkglint -Cnone,PLIST -Wnone,plist-sort -r -F @ text @@@comment $NetBSD: PLIST,v 1.3 2009/06/14 17:34:33 joerg Exp $ bin/adjust bin/anomaly bin/build-icm bin/check bin/codon-usage bin/compare-lists bin/generate bin/get-len bin/get-putative bin/glextract bin/glimmer2 bin/long-orfs share/doc/glimmer/build-icm.readme share/doc/glimmer/extract.readme share/doc/glimmer/glimmer2.readme share/doc/glimmer/long-orfs.readme share/doc/glimmer/run-glimmer2.readme share/glimmer/run-glimmer2 @ 1.3 log @Remove @@dirrm entries from PLISTs @ text @d1 1 a1 1 @@comment $NetBSD: PLIST,v 1.2 2003/10/07 18:20:15 jschauma Exp $ a7 1 bin/glextract d11 1 @ 1.2 log @Apply patches from Tyler Retzlaff in PR pkg/23083 to make this behave with gcc3. While here, update to version 2.12 (previous version was erraneously named 2.1, when it should have been 2.10) which is the only distfile available on the ftp site. Changelog seems to say: - Fix bug on long-orfs.cc to avoid occasional array out-of-bounds error (detected on Mac OS X). @ text @d1 1 a1 1 @@comment $NetBSD: PLIST,v 1.1.1.1 2003/09/30 02:11:06 jschauma Exp $ a19 2 @@dirrm share/glimmer @@dirrm share/doc/glimmer @ 1.1 log @Initial revision @ text @d1 1 a1 1 @@comment $NetBSD$ d8 1 a8 1 bin/extract @ 1.1.1.1 log @Initial import of glimmer, one of the many packages provided by brook at biology dot nmsu dot edu and his team at NMSU. Glimmer (Gene Locator and Interpolated Markov Modeler) is a system for finding genes in microbial DNA, especially the genomes of bacteria and archaea. Glimmer uses interpolated Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA. The IMM approach uses a combination of Markov models from 1st through 8th-order, weighting each model according to its predictive power. @ text @@