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Author SHA1 Message Date
coissac ba26734e9b committed thermostats.h 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@225 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-07-17 15:02:12 +00:00
coissac 50c26e81b9 Added command line options for: 
a. 'salt method' like "-m 1" or "-m 2" here 1 is for SANTALUCIA and 2 is for OWCZARZY
b. 'salt concentration' "-a 0.01" valid range is from 0.01 to 0.3. if not specified then we use default 0.05

git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@224 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-07-14 22:23:18 +00:00
coissac e79738e170 commit -m "Cleaned code for thermodynamics properties and added Melting Temperature for approximate version of strict repeats. Also cleaned printing code. 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@223 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-07-13 09:26:19 +00:00
coissac 91753ace82 Added thermodynamics properties 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@222 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-07-07 12:35:55 +00:00
coissac f142d0e904 Added thermodynamics properties 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@221 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-07-07 12:35:17 +00:00
coissac b4d8842f31 Add minus -R option to localize aplicon over one of the sequence database. 
This option add two column on the right of the output table with the primers location 
and the barcode sequence (small patch)

git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@220 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-06-24 08:12:50 +00:00
coissac 1cae92e963 Add minus -R option to localize aplicon over one of the sequence database. 
This option add two column on the right of the output table with the primers location 
and the barcode sequence    

git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@219 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-06-24 08:09:39 +00:00
coissac 3a617890ca New option for reference sequence 
and bug correction for insequence count

git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@218 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-06-23 14:11:39 +00:00
coissac 40644bc85f git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@216 60f365c0-8329-0410-b2a4-ec073aeeaa1d 2009-05-13 09:26:57 +00:00
coissac c192908469 git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@215 60f365c0-8329-0410-b2a4-ec073aeeaa1d 2009-05-13 09:18:24 +00:00
coissac b0521a7e15 Accept to deal with sequence in lower case 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@214 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-13 07:33:39 +00:00
coissac b7c1640042 New version 0.3 with filtering on short words 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@213 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-13 06:51:25 +00:00
coissac 5dc55c7f53 Some linux patch 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@212 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-12 15:48:59 +00:00
coissac 04ee4e531c remove final binary from archive 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@211 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-12 09:17:52 +00:00
coissac b092497eaf add property to ignore *.P files 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@210 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-12 09:16:09 +00:00
coissac 6624181788 remove *.P files 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@209 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-12 09:13:13 +00:00
coissac 81ada091bf Add option to log memory statistics during primer identifications 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@208 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-05-12 09:06:43 +00:00
coissac c5a430ea80 git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@207 60f365c0-8329-0410-b2a4-ec073aeeaa1d 2009-04-28 21:20:20 +00:00
coissac c308fb2edc Patch eco_malloc functions to allow more than 4Gb allocation on 64bits version 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@206 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-04-28 08:19:50 +00:00
coissac 796274d746 some patches to compile on linux 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@205 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-04-23 22:22:27 +00:00
coissac c36bc5e838 Second run of patch 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@204 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-04-23 11:38:52 +00:00
coissac 313dd59f5a First run of patch 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@203 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-04-22 08:15:18 +00:00
coissac e869d6daed git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@202 60f365c0-8329-0410-b2a4-ec073aeeaa1d 2009-04-20 08:40:32 +00:00
coissac 93b327285a git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@201 60f365c0-8329-0410-b2a4-ec073aeeaa1d 2009-04-20 08:40:14 +00:00
coissac e3d922e103 Merge of eric-test branche to the trunk 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@200 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-04-20 08:38:41 +00:00
coissac b8af5dd65f Merge of eric-test branche to the trunk 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@199 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-04-20 08:31:30 +00:00
coissac 4f9d76f0f2 New version based on sort them merge algorithm 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@182 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-03-04 22:37:58 +00:00
coissac b5b0ca7e9d git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@181 60f365c0-8329-0410-b2a4-ec073aeeaa1d 2009-03-04 22:35:06 +00:00
coissac 64838c1cdf New version based on sort them merge algorithm 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@180 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-03-04 22:32:55 +00:00
coissac 6d8bb449d5 delete old version 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@179 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2009-03-04 22:22:48 +00:00
coissac f9410e5aee Initial commit for this soft 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@175 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2008-10-13 10:39:14 +00:00
coissac f5abbabb54 initial project 
git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPrimers/trunk@172 60f365c0-8329-0410-b2a4-ec073aeeaa1d
 2008-10-13 09:45:11 +00:00