[med-svn] r237 - in trunk/packages/primer3/branches/upstream/current: . src test test/primer_global_err

Charles Plessy charles-guest at alioth.debian.org
Sat Mar 31 23:30:03 UTC 2007


Author: charles-guest
Date: 2007-03-31 23:30:01 +0000 (Sat, 31 Mar 2007)
New Revision: 237

Added:
   trunk/packages/primer3/branches/upstream/current/README.OSX.txt
   trunk/packages/primer3/branches/upstream/current/README.WINXP.txt
   trunk/packages/primer3/branches/upstream/current/src/Makefile.OSXUniversal
Removed:
   trunk/packages/primer3/branches/upstream/current/primer3-1.1.0-beta
Modified:
   trunk/packages/primer3/branches/upstream/current/README.txt
   trunk/packages/primer3/branches/upstream/current/src/Makefile
   trunk/packages/primer3/branches/upstream/current/src/boulder_input.c
   trunk/packages/primer3/branches/upstream/current/src/dpal.c
   trunk/packages/primer3/branches/upstream/current/src/oligotm.c
   trunk/packages/primer3/branches/upstream/current/src/oligotm.h
   trunk/packages/primer3/branches/upstream/current/src/oligotm_main.c
   trunk/packages/primer3/branches/upstream/current/src/primer3_main.c
   trunk/packages/primer3/branches/upstream/current/src/primer3_release.h
   trunk/packages/primer3/branches/upstream/current/src/release_notes.txt
   trunk/packages/primer3/branches/upstream/current/test/oligotm_test.pl
   trunk/packages/primer3/branches/upstream/current/test/p3test.pl
   trunk/packages/primer3/branches/upstream/current/test/primer_boundary1_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_boundary_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_global_err/empty_1.out2
   trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out
   trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out2
   trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out
   trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out2
   trunk/packages/primer3/branches/upstream/current/test/primer_internal1_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_internal_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary1_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary2_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_must_use_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_position_penalty_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_task_formatted_output
   trunk/packages/primer3/branches/upstream/current/test/primer_tm_lc_masking_formatted_output
Log:
Load /tmp/tmp.cVA2bt/primer3-1.1.1 into
trunk/packages/primer3/branches/upstream/current.


Added: trunk/packages/primer3/branches/upstream/current/README.OSX.txt
===================================================================
--- trunk/packages/primer3/branches/upstream/current/README.OSX.txt	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/README.OSX.txt	2007-03-31 23:30:01 UTC (rev 237)
@@ -0,0 +1,81 @@
+OS X (10.4) Universal Binary Installation Instructions (bcf; 3/27/2006;23:33)
+
+
+How to install this software
+============================
+
+1. 	Double click on the .tar.gz file to extract the archive.
+
+2.  The binary files are located in the 'bin' [for 'binary'] folder
+
+3.  (Optional) To run the tests, cd to the new directory and then the test folder
+
+4.  (Optional) Within this folder run:
+	a. perl -w p3test.pl
+	
+5.  (Optional) You should not see 'FAILED' during the tests.
+
+6.  (Optional) *NOTE*:  If your perl command is not called perl 
+	(for example, if it is called perl5) you will have to modify 
+	the internals of the test scripts).
+	
+7.	Copy the following files to a location of your choice:
+	a.  bin/long_seq_tm_test
+	b.  bin/ntdpal
+	c.  bin/oligotm
+	d.  bin/primer3_core
+
+8.	(Optional) Make sure this location is within your $PATH (see below)
+
+
+Where to put the binary files
+=============================
+
+A good place to put these is within ~/bin/ (this means in your home folder, within a folder named `bin` [for 'binary']).
+
+You can also just drag the 'bin' folder to a location within your home directory.
+
+You can certainly also copy the files within 'bin' to /usr/local/bin (if you are an administrator) or another similar location.  
+
+You may need to adjust the permissions on the binaries if you get fancy.
+
+
+Add the location to your $PATH
+==============================
+
+This is an optional step, but it will allow you to run primer3 in any directory on your machine as your user just by typing its name (primer3_core).
+
+*** You should be very careful when altering your $PATH as things can go very wrong.  See below for an alternate method. ***  
+
+If you added the binaries to /usr/local/bin, then you do not need to do this.
+
+If you added the binaries to a local directory (let's say ~/bin/), do the following:
+
+	1.  Edit your ~/.bash_profile.  You can edit this on the command line (Terminal) with:
+
+		nano ~/.bash_profile
+	
+	2. Add the following line if it is not present (replacing '~/bin' if you used another directory):
+
+		PATH=$PATH:~/bin/
+
+	3. If a PATH line *is* present, ensure you add a colon to the end of what is there 
+	and then the directory, so if you have something like:
+
+		a) PATH=$PATH:/usr/local/genome/bin:/sw/bin
+	
+	make it look like:
+	
+		b) PATH=$PATH:/usr/local/genome/bin:/sw/bin:~/bin
+	
+	4. Quit and restart terminal for the changes to take effect.
+		
+If you don't add the location to your $PATH
+===========================================
+
+Assuming you don't want to modify your $PATH, you can still run the binaries.  Let's assume you put the files in '~/bin/.  You may run primer3_core by doing either of the following:
+
+	1. ~/bin/primer3_core < yourInputFile
+	2. /Users/<your username>/bin/primer3_core < yourInputFile
+	
+The first option is just a shortcut to the second.
\ No newline at end of file

Added: trunk/packages/primer3/branches/upstream/current/README.WINXP.txt
===================================================================
--- trunk/packages/primer3/branches/upstream/current/README.WINXP.txt	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/README.WINXP.txt	2007-03-31 23:30:01 UTC (rev 237)
@@ -0,0 +1,55 @@
+Windows Installation Instructions (bcf; 3/20/2006:1200)
+---------------------
+
+primer3 release 1.1.0
+---------------------
+
+Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006
+Whitehead Institute for Biomedical Research, Steve Rozen
+(http://jura.wi.mit.edu/rozen), and Helen Skaletsky
+All rights reserved.
+
+How to install this software
+============================
+
+1. Unzip the '.zip' file downloaded from SourceForge.net
+2. You will create a primer3-1.1.0-beta folder in the location where the file was unzipped
+3. You may move this folder to a location of your choice
+
+Running the software
+====================
+
+To run the program, you must do so from the MS-DOS command-line.  The intricacies of the DOS commandline are beyond the scope of this document.  Google for more information, if needed.  Here is a quick summary:
+
+1. Click on 'Start > Run...'
+2. Type 'cmd' into the space provided
+3. Hit enter (or select 'OK')
+4. Navigate to the location of the binary:
+    
+    A. if you put it in C:/Documents and Settings/YourName/Temp,
+    you would type 'cd c:/Documents and Settings/YourName/Temp'
+    
+    B. you can also type 'cd ' (don't forget the space after cd) 
+    and drag the primer3 folder onto the command-line window from 
+    windows explorer, this will fill in the location for you
+    
+5. Run the example file by typing:
+
+    primer3_core.exe < example
+    
+Other files may be run in a similar fashion.  If your input filename
+is 'MyData.txt' you can run primer3 using this file (in the correct 
+format; see README) with:
+
+    primer3_core.exe < MyData.txt
+    
+If your file is not in the folder containing primer3_core.exe, 
+you could run the program from the primer3_core folder using:
+    
+    primer3_core.exe < c:/someOtherFolder/someOtherFolder/MyData.txt
+    
+Finally, if you want to run the program without going to its folder, 
+assuming primer3_core.exe is in c:/Temp, you could run:
+
+    c:/Temp/primer3_core.exe < c:/someOtherFolder/someOtherFolder/MyData.txt
+    
\ No newline at end of file


Property changes on: trunk/packages/primer3/branches/upstream/current/README.WINXP.txt
___________________________________________________________________
Name: svn:executable
   + *

Modified: trunk/packages/primer3/branches/upstream/current/README.txt
===================================================================
--- trunk/packages/primer3/branches/upstream/current/README.txt	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/README.txt	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,7 +1,7 @@
-primer3 release 1.1.0
+primer3 release 1.1.1
 ---------------------
 
-Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006
+Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006,2007
 Whitehead Institute for Biomedical Research, Steve Rozen
 (http://jura.wi.mit.edu/rozen), and Helen Skaletsky
 All rights reserved.
@@ -46,10 +46,12 @@
 
 o PCR product size,
 
-o positional constraints within the source sequence, and
+o positional constraints within the source (template) sequence, and
 
-o miscellaneous other constraints.
+o possibilities for ectopic priming (amplifying the wrong sequence)
 
+o many other constraints.
+
 All of these criteria are user-specifiable as constraints, and
 some are specifiable as terms in an objective function that
 characterizes an optimal primer pair.
@@ -100,18 +102,18 @@
   compile and link flags.
 
 $ make all
+
 # Warnings about pr_release being unused are harmless.
 # You should have created executables primer3_core, ntdpal,
 #  olgotm, and long_seq_tm_test
 
-$ cd ../test
-$ perl -w p3test.pl
-$ perl -w dpal_test.pl
+$ make test
+
 # You should not see 'FAILED' during the tests.
 
 If your perl command is not called perl (for example, if it is
-called perl5) you will have to modify the internals of the test
-scripts).
+called perl5) you will have to modify the 
+Makefile in the test/ directory.
 
 ntdpal (NucleoTide Dynamic Programming ALignment) is a
 stand-alone program that provides primer3's alignment
@@ -119,7 +121,39 @@
 a.k.a. Needleman-Wunsch, plus "half global").  It is provided
 strictly as is; for further documentation please see the code.
 
+BUILDING OSX UNIVERSAL BINARY
+-----------------------------
 
+** To build a processor-native, non-universal binary of primer3, 
+the following is unneccesary**.  
+
+The instructions above should be sufficient.
+
+A pre-compiled, universal binary download for OSX is available from 
+http://sourceforge.net/projects/primer3/ for the current release.
+
+These instructions assume you want to build binaries compatible 
+with *both* of the current processor architectures used by the Apple
+platform (i,e. the binaries will be run on both PPC and intel platforms).
+
+Provided you have the OS X developer tools installed
+(you can download from http://developer.apple.com after
+registering for a free account), you can compile a universal
+build (intel and PPC native) of primer3.
+
+o you must be running OS X > 10.4 and should have the most
+	recent version of XCode
+o then run `make -f Makefile.OSXUniversal all`
+o run the tests as directed above
+
+Additional instructions for 'installing' the binaries may be found in
+the README.OSX.txt.
+
+You should be able to compile a 3-way binary which includes PPC64 support 
+(intel, PPC, PPC64) by adding the `-arch ppc64` flag to the 
+end of both the CFLAGS and LDFLAGS lines at the top of Makefile.OSX.  
+This has not been tested.
+
 SYSTEM REQUIREMENTS
 -------------------
 
@@ -395,13 +429,18 @@
 the weight defaults to 1.0.  The alignment scoring system used is
 the same as for calculating complementarity among oligos (e.g.
 PRIMER_SELF_ANY), except for the handling of IUB/IUPAC ambiguity
-codes (discussed below).  The remainder of an entry contains the
-sequence as lines following the id line up until a line starting
-with '>' or the end of the file.  Whitespace and newlines are
-ignored.  Characters 'A', 'T', 'G', 'C', 'a', 't', 'g', 'c' 
-and IUB/IUPAC 'ambiguity' codes ('R, 'Y', 'K', 'M', 'S', 'W', 'N',
-including lower case) are retained. 
+codes (discussed below).  
 
+The remainder of an entry contains the sequence as lines
+following the id line up until a line starting with '>' or
+the end of the file.  Whitespace and newlines are ignored.
+Characters 'A', 'T', 'G', 'C', 'a', 't', 'g', 'c' and
+IUB/IUPAC 'ambiguity' codes ('R, 'Y', 'K', 'M', 'S', 'W',
+'N', including lower case) are retained. For technical
+reasons the length of the sequence must be >= 3. Of course,
+sequences of length < 10 or so are probably useless, but
+will be accepted without complaint.
+
 WARNING: always set PRIMER_LIB_AMBIGUITY_CODES_CONSENSUS=0
 if any sequence in the library contains strings of 'N's:
 NNNNNNNNNNNNNNNNNNNN.
@@ -529,6 +568,12 @@
 Only if there are an insufficient number of primers in the first
 range will primer3 return primers in a subsequent range.
 
+For those with primarily a computational background,
+the PCR product size is size (in base pairs) 
+of the DNA fragment that would be produced by the
+PCR reaction on the given sequence template.  This
+would, of course, include the primers themselves.
+
 PRIMER_PICK_INTERNAL_OLIGO (boolean, default 0)
 
 If the associated value is non-0, then primer3 will attempt to
@@ -1267,21 +1312,18 @@
 errors.
 
 PRIMER_LEFT=i,n
-(FORWARD_PRIMER if -v2_compat is set)
 
 The selected left primer (the primer to the left in the input
 sequence).  i is the 0-based index of the start base of the
 primer, and n is t its length.
 
 PRIMER_RIGHT=i,n
-(REVERSE_PRIMER if -v2_compat is set)
 
 The selected right primer (the primer to the right in the input
 sequence).  i is the 0-based index of the last base of the
 primer, and n is its length.
 
 PRIMER_INTERNAL_OLIGO=i,n
-(MIDDLE_OLIGO if -v2_compat is set)
 
 The selected internal oligo. Primer3 outputs this tag if
 PRIMER_PICK_INTERNAL_OLIGO was non-0.  If primer3 fails to pick a
@@ -1290,7 +1332,6 @@
 length.
 
 PRIMER_PRODUCT_SIZE=x
-(PRODUCT_SIZE if -v2_compat is set)
 
 x is the product size of the PCR product.
 

Deleted: trunk/packages/primer3/branches/upstream/current/primer3-1.1.0-beta
===================================================================
(Binary files differ)

Modified: trunk/packages/primer3/branches/upstream/current/src/Makefile
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/Makefile	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/Makefile	2007-03-31 23:30:01 UTC (rev 237)
@@ -70,13 +70,15 @@
 
 PRIMER_OBJECTS=$(PRIMER_OBJECTS1) $(OLIGOTM_LIB)
 PRIMER_DYN_OBJECTS=$(PRIMER_OBJECTS1) $(OLIGOTM_DYN_LIB)
+# These are files generated by running ./primer3_core < ../example
+example_files=example.for example.rev example.int
 
 EXES=$(PRIMER_EXE) ntdpal oligotm long_seq_tm_test
 
 all: $(EXES) $(LIBRARIES)
 
 clean_src:
-	-rm -f *.o $(EXES) $(PRIMER_EXE).dyn *~ $(LIBRARIES)
+	-rm -f *.o $(EXES) $(PRIMER_EXE).dyn *~ $(LIBRARIES) $(example_files)
 
 clean: clean_src
 	cd ../test/; make clean

Added: trunk/packages/primer3/branches/upstream/current/src/Makefile.OSXUniversal
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/Makefile.OSXUniversal	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/Makefile.OSXUniversal	2007-03-31 23:30:01 UTC (rev 237)
@@ -0,0 +1,144 @@
+# ======================================================================
+# (c) Copyright 1996,1997,1998,1999,2000,2001,2004,2006 Whitehead
+# Institute for Biomedical Research, Steve Rozen, and Helen Skaletsky
+# All rights reserved.
+# 
+# Redistribution and use in source and binary forms, with or without
+# modification, are permitted provided that the following conditions are
+# met:
+# 
+#    * Redistributions of source code must retain the above copyright
+# notice, this list of conditions and the following disclaimer.
+#    * Redistributions in binary form must reproduce the above
+# copyright notice, this list of conditions and the following disclaimer
+# in the documentation and/or other materials provided with the
+# distribution.
+#    * Neither the names of the copyright holders nor contributors may
+# be used to endorse or promote products derived from this software
+# without specific prior written permission.
+# 
+# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
+# "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
+# LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
+# A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
+# OWNERS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
+# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
+# LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
+# DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
+# THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
+# (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+# OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+# ======================================================================
+
+# ======================================================================
+# CITING PRIMER3
+# 
+# Steve Rozen and Helen J. Skaletsky (2000) Primer3 on the WWW for
+# general users and for biologist programmers. In: Krawetz S, Misener S
+# (eds) Bioinformatics Methods and Protocols: Methods in Molecular
+# Biology. Humana Press, Totowa, NJ, pp 365-386.  Source code available
+# at http://fokker.wi.mit.edu/primer3/.
+# ======================================================================
+
+MAX_PRIMER_LENGTH = 36
+
+LDLIBS = -lm
+CC      = gcc
+O_OPTS  = -O2
+CC_OPTS = -g -Wall -D__USE_FIXED_PROTOTYPES__
+P_DEFINES = -DDPAL_MAX_ALIGN=$(MAX_PRIMER_LENGTH) -DMAX_PRIMER_LENGTH=$(MAX_PRIMER_LENGTH)
+
+CFLAGS=-isysroot /Developer/SDKs/MacOSX10.4u.sdk -arch ppc -arch i386
+LDFLAGS=-g -Wl,-syslibroot,/Developer/SDKs/MacOSX10.4u.sdk -arch ppc -arch i386
+
+# ======================================================================
+# If you have trouble with library skew when moving primer3 executables
+# between systems, you might want to set LIBOPTS to -static
+LIBOPTS =
+
+PRIMER_EXE      = primer3_core
+OLIGOTM_LIB     = liboligotm.a
+OLIGOTM_DYN_LIB = liboligotm.so.1.2.0
+LIBRARIES       = $(OLIGOTM_LIB)
+RANLIB          = ranlib
+
+PRIMER_OBJECTS1=primer3_main.o\
+                primer3.o\
+                dpal_primer.o\
+                format_output.o\
+                boulder_input.o\
+
+PRIMER_OBJECTS=$(PRIMER_OBJECTS1) $(OLIGOTM_LIB)
+PRIMER_DYN_OBJECTS=$(PRIMER_OBJECTS1) $(OLIGOTM_DYN_LIB)
+
+EXES=$(PRIMER_EXE) ntdpal oligotm long_seq_tm_test
+
+all: $(EXES) $(LIBRARIES)
+
+clean_src:
+	-rm -f *.o $(EXES) $(PRIMER_EXE).dyn *~ $(LIBRARIES)
+
+clean: clean_src
+	cd ../test/; make clean
+
+$(OLIGOTM_LIB): oligotm.o
+	ar rv $@ oligotm.o
+	$(RANLIB) $@
+
+$(OLIGOTM_DYN_LIB): oligotm.o
+	gcc -shared -W1,-soname,liboligotm.so.1 -o $(OLIGOTM_DYN_LIB) oligotm.o
+
+$(PRIMER_EXE): $(PRIMER_OBJECTS)
+	$(CC) $(LDFLAGS) -o $@ $(PRIMER_OBJECTS) $(LIBOPTS) $(LDLIBS)
+
+# For use with valgrind, which requires at lease one
+# dynamically linked library.  Automatic testing with
+# valgrind is not implemented at this point.
+$(PRIMER_EXE).dyn: $(PRIMER_DYN_OBJECTS)
+	$(CC) $(CFLAGS) -o $@ $(PRIMER_DYN_OBJECTS) $(LIBOPTS) $(LDLIBS)
+
+ntdpal: ntdpal_main.o dpal.o
+	$(CC) $(LDFLAGS) -o $@ ntdpal_main.o dpal.o
+
+oligotm: oligotm_main.c oligotm.h $(OLIGOTM_LIB)
+	$(CC) $(CFLAGS) -o $@ oligotm_main.c $(OLIGOTM_LIB) $(LIBOPTS) $(LDLIBS)
+
+long_seq_tm_test: long_seq_tm_test_main.c oligotm.o
+	$(CC) $(CFLAGS) -o $@ long_seq_tm_test_main.c oligotm.o $(LIBOPTS) $(LDLIBS)
+
+boulder_input.o: boulder_input.c boulder_input.h primer3.h primer3_release.h dpal.h
+	$(CC) -c $(CFLAGS) $(P_DEFINES) -o $@ boulder_input.c
+
+dpal.o: dpal.c dpal.h primer3_release.h
+	$(CC) -c $(CFLAGS) -o $@ dpal.c
+
+dpal_primer.o: dpal.c dpal.h primer3_release.h
+	$(CC) -c $(CFLAGS) $(P_DEFINES) -o $@ dpal.c
+
+format_output.o: format_output.c primer3_release.h format_output.h primer3.h dpal.h
+	$(CC) -c $(CFLAGS) $(P_DEFINES) -o $@ format_output.c
+
+#########################################################
+# Changed the following to allow OS X Universal build
+#########################################################
+#ntdpal_main.o: ntdpal_main.c dpal.h
+#	$(CC) -c $(CC_OPTS) -o $@ ntdpal_main.c
+# We use CC_OPTS above rather than CFLAGS because
+# gcc 2.7.2 crashes while compiling ntdpal_main.c with -O2
+##########################################################
+
+ntdpal_main.o: ntdpal_main.c dpal.h
+	$(CC) -c $(CFLAGS) -o $@ ntdpal_main.c
+
+oligotm.o: oligotm.c oligotm.h primer3_release.h
+
+primer3.o: primer3.c primer3.h primer3_release.h
+	$(CC) -c $(CFLAGS) $(P_DEFINES) primer3.c
+
+primer3_main.o: primer3_main.c primer3.h primer3_release.h dpal.h oligotm.h format_output.h
+	$(CC) -c $(CFLAGS) $(P_DEFINES) primer3_main.c
+
+primer_test: test
+
+test: $(PRIMER_EXE) ntdpal
+	cd ../test; make test

Modified: trunk/packages/primer3/branches/upstream/current/src/boulder_input.c
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/boulder_input.c	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/boulder_input.c	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,5 +1,5 @@
 /*
-Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006
+Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006,2007
 Whitehead Institute for Biomedical Research, Steve Rozen
 (http://jura.wi.mit.edu/rozen), and Helen Skaletsky
 All rights reserved.
@@ -864,8 +864,8 @@
 	pr_append_new_chunk(&lib->error, "Empty ");
 	goto ERROR;
     }
-    else if(strlen(lib->seqs[i]) == 0) {
-	pr_append_new_chunk(&lib->error, "Empty sequence in ");
+    else if(strlen(lib->seqs[i]) < 3) {
+	pr_append_new_chunk(&lib->error, "Sequence length < 3 in ");
 	goto ERROR;
     }
     tmp = upcase_and_check_char(lib->seqs[i]);
@@ -1035,7 +1035,7 @@
 
    p = q = s;
    k = strlen(s);
-   g = *num = malloc(sizeof(int)*k);
+   g = *num = pr_safe_malloc(sizeof(int)*k);
    while(*p == ' ' || *p == '\t'){
       p++;
       if(*p == '\0' || *p == '\n') return 0;
@@ -1050,4 +1050,3 @@
    }
    return i;
 }
-

Modified: trunk/packages/primer3/branches/upstream/current/src/dpal.c
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/dpal.c	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/dpal.c	2007-03-31 23:30:01 UTC (rev 237)
@@ -1052,11 +1052,16 @@
     fprintf(stderr, "_dpal_long_nopath_maxgap1_local_end called\n");
 #endif
 
+    if (ylen < 3) {
+      fprintf(stderr, "_dpal_long_nopath_maxgap1_local_end requires ylen >= 3\n");
+      abort();
+    }
+
     P0 = malloc(sizeof(int)*ylen);
     if (!P0) { DPAL_OOM_ERROR; }
     P1 = malloc(sizeof(int)*ylen);
     if (!P1) { DPAL_OOM_ERROR; }
-    P2 = malloc(sizeof(int)*ylen);
+    P2 = malloc(sizeof(int)*ylen);  /* Memory was allocated here. */
     if (!P2) { DPAL_OOM_ERROR; }
 
     S0 = P0; S1 = P1; S2 = P2;

Modified: trunk/packages/primer3/branches/upstream/current/src/oligotm.c
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/oligotm.c	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/oligotm.c	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,5 +1,5 @@
 /*
-Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006
+Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006,2007
 Whitehead Institute for Biomedical Research, Steve Rozen
 (http://jura.wi.mit.edu/rozen), and Helen Skaletsky
 All rights reserved.
@@ -299,6 +299,8 @@
   register int dh = 0, ds = 0;
   register char c;
   double delta_H, delta_S;
+  double Tm; /* Melting temperature */
+  double correction;
   int len, sym;
   const char* d = s;
    if(divalent_to_monovalent(divalent_conc, dntp_conc) == OLIGOTM_ERROR) return OLIGOTM_ERROR;
@@ -384,7 +386,7 @@
 			    * Nearest-neighbor thermodynamic values for ds
 			    * are in in .1 cal/K per mol of interaction.
 			    */
-  double Tm=0;  /* Melting temperature */
+  Tm=0;  /* Melting temperature */
   len=len+1;
   if (salt_corrections == SALT_CORRECTION_SCHILDKRAUT) {
     double correction=- 273.15 + 16.6 * log10(K_mM/1000.0);
@@ -405,12 +407,12 @@
       if(*d == 'C' || *d == 'G') {
 	gcPercent++;
       }
-      *d++;
+      d++; 
       i++;
     }      
     gcPercent = (double)gcPercent/((double)len);
 
-    double correction 
+    /* double */ correction 
       = (((4.29 * gcPercent) - 3.95) * pow(10,-5) * log(K_mM / 1000.0))
       + (9.40 * pow(10,-6) * (pow(log(K_mM / 1000.0),2)));
 
@@ -567,11 +569,12 @@
   double divalent_conc;
   double dntp_conc;
 {
+  int GC_count = 0;
+  const char *p, *end;
+
    if(divalent_to_monovalent(divalent_conc, dntp_conc) == OLIGOTM_ERROR) return OLIGOTM_ERROR;
    
    salt_conc = salt_conc + divalent_to_monovalent(divalent_conc, dntp_conc);
-   int GC_count = 0;
-  const char *p, *end;
 
   if(start + len > strlen(s) || start < 0 || len <= 0)
     return OLIGOTM_ERROR;
@@ -590,7 +593,8 @@
 
 }
 
-int symmetry(const char* seq) { /* for testing if string is symmetrical*/ 
+ /* Return 1 if string is symmetrical, 0 otherwise. */ 
+int symmetry(const char* seq) {
    register char s;
    register char e;
    const char *seq_end=seq;
@@ -624,10 +628,14 @@
    return 1;
 }
 
-double divalent_to_monovalent(double divalent, double dntp){ /* converting divalent salt concentration to monovalent */
+/* Convert divalent salt concentration to monovalent */
+double divalent_to_monovalent(double divalent, 
+			      double dntp)
+{
    if(divalent==0) dntp=0;
    if(divalent<0 || dntp<0) return OLIGOTM_ERROR;
-   if(divalent<dntp) /* according to theory melting temperature doesn't depend on divalent cations */
+   if(divalent<dntp) 
+     /* According to theory, melting temperature doesn't depend on divalent cations */
      divalent=dntp;  
    return 120*(sqrt(divalent-dntp));
 }

Modified: trunk/packages/primer3/branches/upstream/current/src/oligotm.h
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/oligotm.h	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/oligotm.h	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,5 +1,5 @@
 /*
-Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006
+Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006,2007
 Whitehead Institute for Biomedical Research, Steve Rozen
 (http://jura.wi.mit.edu/rozen), and Helen Skaletsky
 All rights reserved.
@@ -54,7 +54,12 @@
    since mM is the usual units in PCR applications.
 
  */
-double long_seq_tm(const char *seq, int start, int length, double salt_conc, double divalent_conc, double dntp_conc);
+double long_seq_tm(const char *seq, 
+		   int start, 
+		   int length, 
+		   double salt_conc, 
+		   double divalent_conc, 
+		   double dntp_conc);
 
 /* 
    For olgigotm() and seqtm()
@@ -154,7 +159,6 @@
 	     int salt_corrections /* See description above. */
 	     );
 
-
 /* Return the delta G of disruption of oligo using the nearest neighbor model.
    The length of seq should be relatively short, 
    given the characteristics of the nearest

Modified: trunk/packages/primer3/branches/upstream/current/src/oligotm_main.c
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/oligotm_main.c	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/oligotm_main.c	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,5 +1,5 @@
 /*
-Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006
+Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006,2007
 Whitehead Institute for Biomedical Research, Steve Rozen
 (http://jura.wi.mit.edu/rozen), and Helen Skaletsky
 All rights reserved.
@@ -34,9 +34,7 @@
    the function oligotm() in oligtm.c
 */
 int
-main(argc, argv)
-    int argc;
-    char **argv;
+main(int argc, char **argv)
 {
   double tm;
 
@@ -107,83 +105,82 @@
 "    if not, write to the Free Software Foundation, Inc.,\n"
 "    51 Franklin St, Fifth Floor, Boston, MA  02110-1301  USA\n";
 
-   char *endptr;
+   char *endptr, *seq;
    long mv = 50, d = 50;
    double dv = 0, n = 0;
    int tm_santalucia=0, salt_corrections=0;
-   int i;
-  if (argc < 2 || argc > 14) {
-    fprintf(stderr, msg, argv[0]);       
-    fprintf(stderr, copyright);
-    return -1;
-  }
+   int i, j, len;
+   if (argc < 2 || argc > 14) {
+     fprintf(stderr, msg, argv[0]);       
+     fprintf(stderr, copyright);
+     return -1;
+   }
 
-  for (i=1; i < argc; ++i) {
-    if (!strncmp("-mv", argv[i], 3)) { /* conc of monovalent cations */
-      mv = strtol(argv[i+1], &endptr, 10);
-      if ('\0' != *endptr) {
-	fprintf(stderr, msg, argv[0]);
-	exit(-1);
-      }
-      i++;
-    } else if (!strncmp("-dv", argv[i], 3)) { /* conc of divalent cations; added by T.Koressaar */
+   for (i=1; i < argc; ++i) {
+     if (!strncmp("-mv", argv[i], 3)) { /* conc of monovalent cations */
+       mv = strtol(argv[i+1], &endptr, 10);
+       if ('\0' != *endptr) {
+	 fprintf(stderr, msg, argv[0]);
+	 exit(-1);
+       }
+       i++;
+     } else if (!strncmp("-dv", argv[i], 3)) { /* conc of divalent cations; added by T.Koressaar */
        dv = strtod(argv[i+1], &endptr);
        if('\0' != *endptr) {
-	  fprintf(stderr, msg, argv[0]);
-	  exit(-1);
+	 fprintf(stderr, msg, argv[0]);
+	 exit(-1);
        }
        i++;
-    } else if (!strncmp("-n", argv[i], 2)) { /* conc of dNTP; added by T.Koressaar */
+     } else if (!strncmp("-n", argv[i], 2)) { /* conc of dNTP; added by T.Koressaar */
        n = strtod(argv[i+1], &endptr);
        if('\0' != *endptr) {
-	  fprintf(stderr, msg, argv[0]);
-	  exit(-1);
+	 fprintf(stderr, msg, argv[0]);
+	 exit(-1);
        }
        i++;
-    } else if (!strncmp("-d", argv[i], 2)) {
+     } else if (!strncmp("-d", argv[i], 2)) {
        d = strtol(argv[i+1], &endptr, 10);
        if ('\0' != *endptr) {
-	  fprintf(stderr, msg, argv[0]);
-	  exit(-1);
+	 fprintf(stderr, msg, argv[0]);
+	 exit(-1);
        }
        i++;
-    } else if (!strncmp("-tp", argv[i], 3)) { /* added by T.Koressaar */
+     } else if (!strncmp("-tp", argv[i], 3)) { /* added by T.Koressaar */
        tm_santalucia = (int)strtol(argv[i+1], &endptr, 10);
        if ('\0' != *endptr || tm_santalucia<0 || tm_santalucia>1) {	  
-	  fprintf(stderr, msg, argv[0]);
-	  exit(-1);
+	 fprintf(stderr, msg, argv[0]);
+	 exit(-1);
        }
        i++;
-    } else if (!strncmp("-sc", argv[i], 3)) { /* added by T.Koressaar */
+     } else if (!strncmp("-sc", argv[i], 3)) { /* added by T.Koressaar */
        salt_corrections = (int)strtol(argv[i+1], &endptr, 10);
        if ('\0' != *endptr || salt_corrections<0 || salt_corrections>2) {
 	 fprintf(stderr, msg, argv[0]);
 	 exit(-1);
-      }
+       }
        i++;
-    } else if (!strncmp("-i", argv[i], 2)) {
+     } else if (!strncmp("-i", argv[i], 2)) {
        fprintf(stderr, info, argv[0]);
        exit(-1);	    
-    } else if (!strncmp("-", argv[i], 1)) {
+     } else if (!strncmp("-", argv[i], 1)) {
        /* Unknown option. */
        fprintf(stderr, msg, argv[0]);
        exit(-1);
-    } else
-      break;		/* all args processed. go on to sequences. */
-  }
+     } else
+       break;		/* all args processed. go on to sequences. */
+   }
    
   if(!argv[i]) { /* if no oligonucleotide sequence is specified */
     fprintf(stderr, msg, argv[0]);
     exit(-1);
   }
-   /* input sequence to uppercase */
-   int j,len;
-   char *seq = argv[i];
-   len=strlen(seq);
-   for(j=0;j<len;j++) seq[j]=toupper(seq[j]);
+  /* input sequence to uppercase */
+  seq = argv[i];
+  len=strlen(seq);
+  for(j=0;j<len;j++) seq[j]=toupper(seq[j]);
    
-   tm = oligotm(seq, d, mv, dv, n, tm_santalucia, salt_corrections);
-   if (OLIGOTM_ERROR == tm) {
+  tm = oligotm(seq, d, mv, dv, n, tm_santalucia, salt_corrections);
+  if (OLIGOTM_ERROR == tm) {
     fprintf(stderr,
 	    "%s ERROR: length of sequence %s is less than 2 or\n"
 	    "             the sequence contains an illegal character or\n" 

Modified: trunk/packages/primer3/branches/upstream/current/src/primer3_main.c
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/primer3_main.c	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/primer3_main.c	2007-03-31 23:30:01 UTC (rev 237)
@@ -536,15 +536,26 @@
     const primer_pair *pair;
     const pair_array_t *retpair;
 {
-    const primer_pair *q = &retpair->pairs[0], 
-		      *stop = &retpair->pairs[retpair->num_pairs];
-    for (; q < stop; q++) {
-	if (q->left->start == pair->left->start
-	    && q->left->length == pair->left->length
-	    && q->right->start == pair->right->start
-	    && q->right->length == pair->right->length) return 1;
-    }
+  const primer_pair *q, *stop;
+
+  /* OLD CODE: const primer_pair *q = &retpair->pairs[0], 
+   *stop = &retpair->pairs[retpair->num_pairs]; */
+
+  /* retpair might not have any pairs in it yet (add_pair
+     allocates memory for retpair->pairs. */
+  if (retpair->num_pairs == 0)
     return 0;
+
+  q = &retpair->pairs[0];
+  stop = &retpair->pairs[retpair->num_pairs];  
+  
+  for (; q < stop; q++) {
+    if (q->left->start == pair->left->start
+	&& q->left->length == pair->left->length
+	&& q->right->start == pair->right->start
+	&& q->right->length == pair->right->length) return 1;
+  }
+  return 0;
 }
 
 /* Add 'pair' to 'retpair'. */
@@ -2701,7 +2712,11 @@
     tmp_char = target[first_untrimmed];
     target[first_untrimmed] = '\0';
 
-    tmp_score = align(oseq, target, align_args);
+    if (strlen(target) < 3) {
+      tmp_score = 3;
+    } else {
+      tmp_score = align(oseq, target, align_args);
+    }
 
     if (debug) {
       if (l == OT_LEFT) fprintf(stderr, "\n************ OLIGO = LEFT\n");

Modified: trunk/packages/primer3/branches/upstream/current/src/primer3_release.h
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/primer3_release.h	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/primer3_release.h	2007-03-31 23:30:01 UTC (rev 237)
@@ -33,7 +33,5 @@
 
 #ifndef RELEASE_H
 #define RELEASE_H 1
-static const char * pr_release = "primer3 release 1.1.0";
-/* This is a beta release, identical to release 1.0b
-   except for version number */
+static const char * pr_release = "primer3 release 1.1.1";
 #endif

Modified: trunk/packages/primer3/branches/upstream/current/src/release_notes.txt
===================================================================
--- trunk/packages/primer3/branches/upstream/current/src/release_notes.txt	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/src/release_notes.txt	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,3 +1,7 @@
+release 1.1.1 3/37/2007 ==================================================
+
+ Minor corrections
+
 release 1.1.0 1/17/2007 ==================================================
 
  Added tags PRIMER_TM_SANTALUCIA, PRIMER_SALT_CORRECTIONS,

Modified: trunk/packages/primer3/branches/upstream/current/test/oligotm_test.pl
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/oligotm_test.pl	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/oligotm_test.pl	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,5 +1,5 @@
 # Copyright (c) 2007
-# Triinu Koressaar an Maido Remm
+# Triinu Koressaar and Maido Remm
 # All rights reserved.
 # 
 #     This file is part of the oligotm library.

Modified: trunk/packages/primer3/branches/upstream/current/test/p3test.pl
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/p3test.pl	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/p3test.pl	2007-03-31 23:30:01 UTC (rev 237)
@@ -22,7 +22,7 @@
 $exe = $ARGV[0] if defined $ARGV[0];
 $EXIT_STAT = 0;
 
-die "Cannot execute $exe" unless -x $exe;
+# die "Cannot execute $exe" unless -x $exe;
 
 print STDERR "\n\n$0: testing $exe\n\nSTART, ", scalar(localtime), "\n";
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_boundary1_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_boundary1_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_boundary1_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -26,7 +26,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_01
@@ -57,7 +57,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_02
@@ -88,7 +88,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_03
@@ -112,7 +112,7 @@
 Right      4     3     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, unacceptable product size 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_04
@@ -136,7 +136,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, unacceptable product size 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_05
@@ -167,7 +167,7 @@
 Right      5     3     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 3, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_06
@@ -191,7 +191,7 @@
 Right      5     5     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_07
@@ -223,7 +223,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_08
@@ -251,7 +251,7 @@
 Right      6     5     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_09
@@ -279,7 +279,7 @@
 Right      5     5     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_10
@@ -303,7 +303,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -334,7 +334,7 @@
 Right      5     2     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 3, unacceptable product size 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -358,7 +358,7 @@
 Right      5     2     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_12
@@ -389,7 +389,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_13
@@ -420,7 +420,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_14
@@ -444,7 +444,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_15
@@ -475,7 +475,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_16
@@ -499,7 +499,7 @@
 Right      5     4     0     0     1     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_17
@@ -531,7 +531,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_18
@@ -559,7 +559,7 @@
 Right      1     1     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_19
@@ -591,7 +591,7 @@
 Right      1     1     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_21
@@ -624,7 +624,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_22
@@ -653,7 +653,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_23
@@ -682,7 +682,7 @@
 Right      2     2     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_24
@@ -711,7 +711,7 @@
 Right      2     2     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_25
@@ -744,7 +744,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_26
@@ -773,7 +773,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_27
@@ -802,7 +802,7 @@
 Right      5     4     1     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_28
@@ -831,7 +831,7 @@
 Right      5     4     1     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_29
@@ -864,7 +864,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_30
@@ -897,7 +897,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_31
@@ -926,7 +926,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_32
@@ -959,7 +959,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_33
@@ -988,7 +988,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_34
@@ -1017,7 +1017,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_35
@@ -1046,7 +1046,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_36
@@ -1079,7 +1079,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_37
@@ -1108,7 +1108,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_37
@@ -1137,7 +1137,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_38
@@ -1166,7 +1166,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_39
@@ -1199,7 +1199,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_40
@@ -1232,7 +1232,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_41
@@ -1258,7 +1258,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_42
@@ -1291,7 +1291,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_43
@@ -1320,7 +1320,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_44
@@ -1353,7 +1353,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_45
@@ -1386,7 +1386,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_46
@@ -1415,7 +1415,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_47
@@ -1448,7 +1448,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_48
@@ -1477,7 +1477,7 @@
 Right      5     4     0     0     0     1     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_49
@@ -1510,7 +1510,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_50
@@ -1539,7 +1539,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_51
@@ -1572,7 +1572,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_52
@@ -1605,7 +1605,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_53
@@ -1634,7 +1634,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, tm diff too large 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_54
@@ -1669,7 +1669,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_55
@@ -1702,7 +1702,7 @@
 Intl       0     0     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR poly_x_2
@@ -1765,7 +1765,7 @@
 Intl    1585     0     0     0     0     0     0     0     0     0     0     0  1585
 Pair Stats:
 considered 72, unacceptable product size 52, ok 20
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR poly_x_3
@@ -1794,7 +1794,7 @@
 Intl     187     0     0     0     0     0     0     0     0     0   187     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_59
@@ -1827,7 +1827,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_60
@@ -1853,7 +1853,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_61
@@ -1893,7 +1893,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_63
@@ -1923,7 +1923,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_64
@@ -1963,7 +1963,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_66
@@ -1993,7 +1993,7 @@
 Right      1     0     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_67
@@ -2025,7 +2025,7 @@
 Right      6     5     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_68
@@ -2058,7 +2058,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_69
@@ -2084,7 +2084,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_70
@@ -2120,7 +2120,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_72
@@ -2150,7 +2150,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_73
@@ -2186,7 +2186,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_75
@@ -2216,7 +2216,7 @@
 Right      0     0     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_76
@@ -2248,7 +2248,7 @@
 Right      6     5     1     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_77
@@ -2282,7 +2282,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_78
@@ -2316,7 +2316,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_79
@@ -2350,7 +2350,7 @@
 Right      6     5     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_80
@@ -2384,7 +2384,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_81
@@ -2418,7 +2418,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_82
@@ -2451,7 +2451,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_83
@@ -2480,7 +2480,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_84
@@ -2513,7 +2513,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_85
@@ -2546,7 +2546,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_86
@@ -2580,7 +2580,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_71
@@ -2616,7 +2616,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_72
@@ -2648,7 +2648,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 3, unacceptable product size 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_73
@@ -2676,7 +2676,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, unacceptable product size 2, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_74
@@ -2708,7 +2708,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_75
@@ -2740,7 +2740,7 @@
 Right      2     1     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, unacceptable product size 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_76
@@ -2772,7 +2772,7 @@
 Right      2     1     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, unacceptable product size 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_77
@@ -2813,7 +2813,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 2, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_78
@@ -2854,7 +2854,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 2, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_79
@@ -2895,7 +2895,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 1, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_80
@@ -2936,7 +2936,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 1, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_81
@@ -2968,7 +2968,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_82
@@ -2996,7 +2996,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, high any compl 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_83
@@ -3028,7 +3028,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_84
@@ -3056,7 +3056,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, high end compl 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_85
@@ -3088,7 +3088,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 200, ok 200
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_86
@@ -3122,7 +3122,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_87
@@ -3160,7 +3160,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_89

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_boundary_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_boundary_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_boundary_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -26,7 +26,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_01
@@ -57,7 +57,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_02
@@ -88,7 +88,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_03
@@ -112,7 +112,7 @@
 Right      4     3     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, unacceptable product size 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_04
@@ -136,7 +136,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, unacceptable product size 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_05
@@ -167,7 +167,7 @@
 Right      5     3     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 3, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_06
@@ -191,7 +191,7 @@
 Right      5     5     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_07
@@ -223,7 +223,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_08
@@ -251,7 +251,7 @@
 Right      6     5     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_09
@@ -279,7 +279,7 @@
 Right      5     5     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_10
@@ -303,7 +303,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -334,7 +334,7 @@
 Right      5     2     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 3, unacceptable product size 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -358,7 +358,7 @@
 Right      5     2     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_12
@@ -389,7 +389,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_13
@@ -420,7 +420,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_14
@@ -444,7 +444,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_15
@@ -475,7 +475,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_16
@@ -499,7 +499,7 @@
 Right      5     4     0     0     1     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_17
@@ -531,7 +531,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_18
@@ -559,7 +559,7 @@
 Right      1     1     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_19
@@ -591,7 +591,7 @@
 Right      1     1     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_21
@@ -624,7 +624,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_22
@@ -653,7 +653,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_23
@@ -682,7 +682,7 @@
 Right      2     2     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_24
@@ -711,7 +711,7 @@
 Right      2     2     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_25
@@ -744,7 +744,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_26
@@ -773,7 +773,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_27
@@ -802,7 +802,7 @@
 Right      5     4     1     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_28
@@ -831,7 +831,7 @@
 Right      5     4     1     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_29
@@ -864,7 +864,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_30
@@ -897,7 +897,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_31
@@ -926,7 +926,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_32
@@ -959,7 +959,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_33
@@ -988,7 +988,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_34
@@ -1017,7 +1017,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_35
@@ -1046,7 +1046,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_36
@@ -1079,7 +1079,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_37
@@ -1108,7 +1108,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_37
@@ -1137,7 +1137,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_38
@@ -1166,7 +1166,7 @@
 Right      5     4     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_39
@@ -1199,7 +1199,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_40
@@ -1232,7 +1232,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_41
@@ -1258,7 +1258,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_42
@@ -1291,7 +1291,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_43
@@ -1320,7 +1320,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_44
@@ -1353,7 +1353,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_45
@@ -1386,7 +1386,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_46
@@ -1415,7 +1415,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_47
@@ -1448,7 +1448,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_48
@@ -1477,7 +1477,7 @@
 Right      5     4     0     0     0     1     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_49
@@ -1510,7 +1510,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_50
@@ -1539,7 +1539,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_51
@@ -1572,7 +1572,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_52
@@ -1605,7 +1605,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_53
@@ -1634,7 +1634,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, tm diff too large 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_54
@@ -1669,7 +1669,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_55
@@ -1702,7 +1702,7 @@
 Intl       0     0     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR poly_x_2
@@ -1765,7 +1765,7 @@
 Intl    1585     0     0     0     0     0     0     0     0     0     0     0  1585
 Pair Stats:
 considered 72, unacceptable product size 52, ok 20
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR poly_x_3
@@ -1794,7 +1794,7 @@
 Intl     187     0     0     0     0     0     0     0     0     0   187     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_59
@@ -1827,7 +1827,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_60
@@ -1853,7 +1853,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_61
@@ -1893,7 +1893,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_63
@@ -1923,7 +1923,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_64
@@ -1963,7 +1963,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_66
@@ -1993,7 +1993,7 @@
 Right      1     0     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_67
@@ -2025,7 +2025,7 @@
 Right      6     5     0     1     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_68
@@ -2058,7 +2058,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_69
@@ -2084,7 +2084,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_70
@@ -2120,7 +2120,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_72
@@ -2150,7 +2150,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_73
@@ -2186,7 +2186,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_75
@@ -2216,7 +2216,7 @@
 Right      0     0     0     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_76
@@ -2248,7 +2248,7 @@
 Right      6     5     1     0     0     0     0     0     0     0     0     0     0
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_77
@@ -2282,7 +2282,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_78
@@ -2316,7 +2316,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_79
@@ -2350,7 +2350,7 @@
 Right      6     5     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_80
@@ -2384,7 +2384,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_81
@@ -2418,7 +2418,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_82
@@ -2451,7 +2451,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_83
@@ -2480,7 +2480,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, no target 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_84
@@ -2513,7 +2513,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_85
@@ -2546,7 +2546,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_86
@@ -2580,7 +2580,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_71
@@ -2616,7 +2616,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_72
@@ -2648,7 +2648,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 3, unacceptable product size 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_73
@@ -2676,7 +2676,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, unacceptable product size 2, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_74
@@ -2708,7 +2708,7 @@
 Right      3     2     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_75
@@ -2740,7 +2740,7 @@
 Right      2     1     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, unacceptable product size 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_76
@@ -2772,7 +2772,7 @@
 Right      2     1     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 2, unacceptable product size 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_77
@@ -2813,7 +2813,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 2, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_78
@@ -2854,7 +2854,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 2, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_79
@@ -2895,7 +2895,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 1, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_80
@@ -2936,7 +2936,7 @@
 Right     28    26     0     0     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 4, unacceptable product size 1, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_81
@@ -2968,7 +2968,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_82
@@ -2996,7 +2996,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, high any compl 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_83
@@ -3028,7 +3028,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_84
@@ -3056,7 +3056,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, high end compl 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_85
@@ -3088,7 +3088,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 200, ok 200
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_86
@@ -3122,7 +3122,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_87
@@ -3160,7 +3160,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_89
@@ -3195,7 +3195,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_91
@@ -3219,7 +3219,7 @@
 Right     10     9     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 0, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_92
@@ -3254,7 +3254,7 @@
 Right      5     2     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 9, unacceptable product size 8, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_93
@@ -3289,7 +3289,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_94
@@ -3324,7 +3324,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_95
@@ -3359,7 +3359,7 @@
 Right      5     4     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_96
@@ -3394,7 +3394,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_97
@@ -3429,7 +3429,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR test_098
@@ -3461,7 +3461,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR test_099
@@ -3485,7 +3485,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, high product Tm 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR test_100
@@ -3516,7 +3516,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR test_101
@@ -3548,7 +3548,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR test_102
@@ -3572,7 +3572,7 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, low product Tm 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR test_103
@@ -3603,6 +3603,6 @@
 Right      5     0     0     0     0     0     0     0     0     0     0     0     5
 Pair Stats:
 considered 5, unacceptable product size 4, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_global_err/empty_1.out2
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_global_err/empty_1.out2	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_global_err/empty_1.out2	2007-03-31 23:30:01 UTC (rev 237)
@@ -32,7 +32,7 @@
 
 
 USAGE: ../src/primer3_core [-format_output] [-2x_compat] [-strict_tags]
-This is primer3 (primer3 release 1.1.0)
+This is primer3 (primer3 release 1.1.1)
 Input must be provided on standard input.
 For example:
 $ primer3_core < my_input_file

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out	2007-03-31 23:30:01 UTC (rev 237)
@@ -1,5 +1,5 @@
 PRIMER_SEQUENCE_ID=seq1
 SEQUENCE=ATGCTAGCTAGTCGATCGATGCTAGCTAGTCGATCTACTATCATCATGCTAGCATGGGGCATCTGTGGGATGCTGTCGTACTGATCGATGCTAGCTAGCTAGTCGATCGTAGCTATCATCATCTAGTCATCGTAGCTATCATCGTAGC
 PRIMER_MISPRIMING_LIBRARY=repeat_lib4
-PRIMER_ERROR=Empty sequence in mispriming library repeat_lib4
+PRIMER_ERROR=Sequence length < 3 in mispriming library repeat_lib4
 =

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out2
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out2	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_err4.out2	2007-03-31 23:30:01 UTC (rev 237)
@@ -1 +1 @@
-../src/primer3_core: Empty sequence in mispriming library repeat_lib4
+../src/primer3_core: Sequence length < 3 in mispriming library repeat_lib4

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out	2007-03-31 23:30:01 UTC (rev 237)
@@ -2,5 +2,5 @@
 SEQUENCE=ATGCTAGCTAGTCGATCGATGCTAGCTAGTCGATCTACTATCATCATGCTAGCATGGGGCATCTGTGGGATGCTGTCGTACTGATCGATGCTAGCTAGCTAGTCGATCGTAGCTATCATCATCTAGTCATCGTAGCTATCATCGTAGC
 PRIMER_INTERNAL_OLIGO_MISHYB_LIBRARY=repeat_lib4
 PRIMER_PICK_INTERNAL_OLIGO=1
-PRIMER_ERROR=Empty sequence in internal oligo mishyb library repeat_lib4
+PRIMER_ERROR=Sequence length < 3 in internal oligo mishyb library repeat_lib4
 =

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out2
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out2	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_global_err/repeat_lib_int_err4.out2	2007-03-31 23:30:01 UTC (rev 237)
@@ -1 +1 @@
-../src/primer3_core: Empty sequence in internal oligo mishyb library repeat_lib4
+../src/primer3_core: Sequence length < 3 in internal oligo mishyb library repeat_lib4

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_internal1_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_internal1_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_internal1_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -33,7 +33,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 4, unacceptable product size 1, no internal oligo 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_01
@@ -71,7 +71,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 2, unacceptable product size 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_02
@@ -109,7 +109,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_05
@@ -147,7 +147,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 4, unacceptable product size 3, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -174,7 +174,7 @@
 Intl      60    59     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 8, unacceptable product size 6, no internal oligo 2, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -219,7 +219,7 @@
 Intl      60    52     0     0     0     0     0     0     0     0     0     0     8
 Pair Stats:
 considered 10, unacceptable product size 8, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_12
@@ -264,7 +264,7 @@
 Intl      60    52     0     0     0     0     0     0     0     0     0     0     8
 Pair Stats:
 considered 10, unacceptable product size 8, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_13
@@ -302,7 +302,7 @@
 Intl      60    23     0     0     0     0     0     0     0     0     0     0    37
 Pair Stats:
 considered 4, unacceptable product size 3, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_14
@@ -340,7 +340,7 @@
 Intl      60    25     0     0     0     0     0     0     0     0     0     0    35
 Pair Stats:
 considered 6, unacceptable product size 5, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_15
@@ -378,7 +378,7 @@
 Intl      60    25     0     0     0     0     0     0     0     0     0     0    35
 Pair Stats:
 considered 6, unacceptable product size 5, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_16
@@ -404,7 +404,7 @@
 Intl      35     0     0     0     0     0     0     0     0     0     0     0    35
 Pair Stats:
 considered 4, no internal oligo 4, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_17
@@ -431,7 +431,7 @@
 Intl      60     0     0     0    29     0     0     0     0     0     0     0    31
 Pair Stats:
 considered 16, unacceptable product size 4, no internal oligo 12, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_18
@@ -465,7 +465,7 @@
 Intl      87    39     0    40     0     0     0     0     0     0     0     0     8
 Pair Stats:
 considered 81, unacceptable product size 49, no internal oligo 32, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_19
@@ -527,7 +527,7 @@
 Intl      91    84     0     5     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 18, unacceptable product size 3, no internal oligo 8, ok 7
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_20
@@ -599,7 +599,7 @@
 Intl     226   175     0    47     0     0     0     0     0     0     0     0     4
 Pair Stats:
 considered 23, no internal oligo 15, ok 8
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_21
@@ -662,7 +662,7 @@
 Intl     152    57     0     0     0     0     1    93     0     0     0     0     1
 Pair Stats:
 considered 323, unacceptable product size 223, no internal oligo 87, ok 13
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_22
@@ -700,7 +700,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_23
@@ -743,7 +743,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_24
@@ -784,7 +784,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_25
@@ -827,7 +827,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_26
@@ -868,7 +868,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_27
@@ -903,7 +903,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, no internal oligo 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_28
@@ -938,7 +938,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, no internal oligo 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_29
@@ -979,7 +979,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_30
@@ -1020,7 +1020,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_31
@@ -1063,7 +1063,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_32
@@ -1106,7 +1106,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_33
@@ -1147,7 +1147,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_34

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_internal_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_internal_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_internal_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -33,7 +33,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 4, unacceptable product size 1, no internal oligo 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_01
@@ -71,7 +71,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 2, unacceptable product size 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_02
@@ -109,7 +109,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_05
@@ -147,7 +147,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 4, unacceptable product size 3, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -174,7 +174,7 @@
 Intl      60    59     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 8, unacceptable product size 6, no internal oligo 2, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_11
@@ -219,7 +219,7 @@
 Intl      60    52     0     0     0     0     0     0     0     0     0     0     8
 Pair Stats:
 considered 10, unacceptable product size 8, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_12
@@ -264,7 +264,7 @@
 Intl      60    52     0     0     0     0     0     0     0     0     0     0     8
 Pair Stats:
 considered 10, unacceptable product size 8, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_13
@@ -302,7 +302,7 @@
 Intl      60    23     0     0     0     0     0     0     0     0     0     0    37
 Pair Stats:
 considered 4, unacceptable product size 3, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_14
@@ -340,7 +340,7 @@
 Intl      60    25     0     0     0     0     0     0     0     0     0     0    35
 Pair Stats:
 considered 6, unacceptable product size 5, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_15
@@ -378,7 +378,7 @@
 Intl      60    25     0     0     0     0     0     0     0     0     0     0    35
 Pair Stats:
 considered 6, unacceptable product size 5, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_16
@@ -404,7 +404,7 @@
 Intl      35     0     0     0     0     0     0     0     0     0     0     0    35
 Pair Stats:
 considered 4, no internal oligo 4, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_17
@@ -431,7 +431,7 @@
 Intl      60     0     0     0    29     0     0     0     0     0     0     0    31
 Pair Stats:
 considered 16, unacceptable product size 4, no internal oligo 12, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_18
@@ -465,7 +465,7 @@
 Intl      87    39     0    40     0     0     0     0     0     0     0     0     8
 Pair Stats:
 considered 81, unacceptable product size 49, no internal oligo 32, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_19
@@ -527,7 +527,7 @@
 Intl      91    84     0     5     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 18, unacceptable product size 3, no internal oligo 8, ok 7
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_20
@@ -599,7 +599,7 @@
 Intl     226   175     0    47     0     0     0     0     0     0     0     0     4
 Pair Stats:
 considered 23, no internal oligo 15, ok 8
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_21
@@ -662,7 +662,7 @@
 Intl     152    57     0     0     0     0     1    93     0     0     0     0     1
 Pair Stats:
 considered 323, unacceptable product size 223, no internal oligo 87, ok 13
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_22
@@ -700,7 +700,7 @@
 Intl      60    57     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_23
@@ -743,7 +743,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_24
@@ -784,7 +784,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_25
@@ -827,7 +827,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_26
@@ -868,7 +868,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_27
@@ -903,7 +903,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, no internal oligo 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_28
@@ -938,7 +938,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, no internal oligo 1, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_29
@@ -979,7 +979,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_30
@@ -1020,7 +1020,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_31
@@ -1063,7 +1063,7 @@
 Intl      56    53     0     0     0     0     0     0     0     0     0     0     3
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_32
@@ -1106,7 +1106,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_33
@@ -1147,7 +1147,7 @@
 Intl      56    53     0     1     0     0     0     0     0     0     0     0     2
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR boundary_test_34

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary1_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary1_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary1_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -39,7 +39,7 @@
 Intl     163     0     0     0     0     0     0     0     0     0   121     0     0    42
 Pair Stats:
 considered 381, unacceptable product size 369, no internal oligo 11, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR pair_0
@@ -67,7 +67,7 @@
 Intl     144     0     0     0     0     0     0     0     0     0     0     0     0   144
 Pair Stats:
 considered 32, unacceptable product size 32, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR pair_1
@@ -111,6 +111,6 @@
 Intl     163     0     0     0     0     0     0     0     0     0   121     0     0    42
 Pair Stats:
 considered 6889, unacceptable product size 3403, no internal oligo 11, high mispriming library similarity 3474, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary2_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary2_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_boundary2_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -39,7 +39,7 @@
 Intl     163     0     0     0     0     0     0     0     0     0   121     0     0    42
 Pair Stats:
 considered 381, unacceptable product size 369, no internal oligo 11, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR pair_0
@@ -67,6 +67,6 @@
 Intl     144     0     0     0     0     0     0     0     0     0     0     0     0   144
 Pair Stats:
 considered 32, unacceptable product size 32, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_mispriming_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -64,7 +64,7 @@
 Right   1012    19     0    58    25     0     0   702     0     0     0     0     0   208
 Pair Stats:
 considered 23, unacceptable product size 17, ok 6
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR exon2
@@ -130,7 +130,7 @@
 Right    827     0     0    72   314     0   236     0     0     0     0     0     0   205
 Pair Stats:
 considered 14, unacceptable product size 8, ok 6
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR exon2
@@ -204,7 +204,7 @@
 Intl    3079     0     0     0   316     0   517   178     0     0     0    23     0  2045
 Pair Stats:
 considered 14, unacceptable product size 8, ok 6
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR exon1
@@ -281,7 +281,7 @@
 Intl    3237    27     0     0    32     0    23  1880     0     0     0     0     0  1275
 Pair Stats:
 considered 29, unacceptable product size 18, high mispriming library similarity 2, ok 9
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR exon2
@@ -355,7 +355,7 @@
 Intl    3079     0     0     0   316     0   517   178     0     0     0    23     0  2045
 Pair Stats:
 considered 116, unacceptable product size 66, tm diff too large 5, high mispriming library similarity 38, ok 7
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR exon2
@@ -401,6 +401,6 @@
 Intl    3079     0     0     0   316     0   517   178     0     0     0    23     0  2045
 Pair Stats:
 considered 12459, unacceptable product size 6872, tm diff too large 4075, high mispriming library similarity 1512, ok 0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_must_use_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_must_use_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_must_use_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -34,7 +34,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR high_tm
@@ -74,7 +74,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR high_tm_and_self_any
@@ -114,7 +114,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR high_tm_and_self_any_and_target
@@ -154,7 +154,7 @@
 Right      3     0     0     0     0     0     0     2     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR high_tm_and_self_any_and_excl_region
@@ -196,7 +196,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR high_tm_and_self_any_and_incl_region
@@ -236,7 +236,7 @@
 Statistics
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR left_high_tm_and_self_any_and_right_bad_gc
@@ -272,7 +272,7 @@
 Statistics
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR left_high_tm_and_self_any_and_right_bad_gc_and_target
@@ -308,7 +308,7 @@
 Statistics
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR internal_too_short
@@ -351,7 +351,7 @@
 Statistics
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR internal_too_cold
@@ -390,7 +390,7 @@
 Statistics
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR internal_too_cold2
@@ -433,7 +433,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR mispriming
@@ -476,6 +476,6 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_position_penalty_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_position_penalty_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_position_penalty_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -60,7 +60,7 @@
 Right   3504     0   289     0     0     0   655  1723     0     0     0     0     0   837
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR AT3_X2
@@ -143,7 +143,7 @@
 Right   6657     0   289     0   114     0  1327  3439     0     2     0    19     0  1467
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR AT3_X3
@@ -217,7 +217,7 @@
 Right   5254     0   289     0   103     0  1706  1557     0     0     0     0     0  1599
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR AT3_X3'
@@ -288,7 +288,7 @@
 Right   4294     0   289     0   209     0   512  2472     0     0     0    25     0   787
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR AT3_X4
@@ -371,7 +371,7 @@
 Right   7004     0   289     0     0     0  1493  3474     0     0     0     0     0  1748
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR AT3_X5
@@ -439,7 +439,7 @@
 Right   3744     0   289     0     0     0   874  1504     0     8     0     0     0  1069
 Pair Stats:
 considered 21, high end compl 20, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR AT3_X6
@@ -510,7 +510,7 @@
 Right   4414     0   289     0   103     0  1578  1288     0     0    14     0     0  1142
 Pair Stats:
 considered 3, high end compl 2, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X1
@@ -578,7 +578,7 @@
 Right   4274     0   289     0     0     0   375  2978     0     0     0     0     0   632
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X2
@@ -640,7 +640,7 @@
 Right   2584     0   289     0     1     0    95  1901     0     0     0     0     0   298
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X3
@@ -711,7 +711,7 @@
 Right   4444     0   289     0     0     0   400  2950     0     0     0     0     0   805
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X4
@@ -779,7 +779,7 @@
 Right   3804     0   289     0     0     0   348  2565     0     0     0     0     0   602
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X5
@@ -847,7 +847,7 @@
 Right   3974     0   289     0    34     0   889  1971     0     0     0     0     0   791
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X6
@@ -915,7 +915,7 @@
 Right   3794     0   289     0     0     0   274  2616     2     3     0     0     0   610
 Pair Stats:
 considered 40, high end compl 38, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X7
@@ -983,7 +983,7 @@
 Right   3593     0   289     0    15     0   752  1654     0     0     0    22     0   861
 Pair Stats:
 considered 102, high any compl 81, high end compl 20, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X8
@@ -1051,7 +1051,7 @@
 Right   3861     0   289     0     8     0   269  2629     0     0     0    22     0   644
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X9
@@ -1116,7 +1116,7 @@
 Right   4589     0   154     0     0     0   711  2838     0     0     0     0     0   886
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X10
@@ -1169,7 +1169,7 @@
 Right   1498     0   226     0     0     0   153   792     0     0     0    22     0   305
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X11
@@ -1222,7 +1222,7 @@
 Right   2741     0   116     0    42     0   336  1775     0     0     0     0     0   472
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X12
@@ -1290,7 +1290,7 @@
 Right   3774     0   289     0     0     0   619  2094     0     0     0     0     0   772
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X13
@@ -1355,7 +1355,7 @@
 Right   3434     0   289     0     0     0   586  1682     0     0     0     0     0   877
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X14
@@ -1411,7 +1411,7 @@
 Right   1454     0   289     0     0     0    83   882     0     0     0     0     0   200
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X15
@@ -1476,7 +1476,7 @@
 Right   3758     0   245     0     1     0   356  2464     0     0     3    22     0   667
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR CETP_X16
@@ -1544,7 +1544,7 @@
 Right   3637     0   289     0     3     0   299  2316     0     0     0    25     0   705
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X1
@@ -1612,7 +1612,7 @@
 Right   4194     0   289     0     8     0   235  3082     0     0     2     0     0   578
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X2
@@ -1683,7 +1683,7 @@
 Right   4704     0   289     0    96     0   191  3583     0     4     0     0     0   541
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X3
@@ -1748,7 +1748,7 @@
 Right   3344     0   289     0     1     0   379  2040     0     0     0     0     0   635
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X4
@@ -1813,7 +1813,7 @@
 Right   3497     0   289     0   107     0   371  2132     0     0     0    18     0   580
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X5
@@ -1881,7 +1881,7 @@
 Right   4154     0   289     0    14     0   310  2916     0     0     0     0     0   625
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X6
@@ -1952,7 +1952,7 @@
 Right   4464     0   289     0    40     0   325  3245     0     0     0     0     0   565
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X7
@@ -2032,7 +2032,7 @@
 Right   5938     0   289     0    51     0   580  3983     0     0     0    44     0   991
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X8
@@ -2103,7 +2103,7 @@
 Right   4384     0   289     0    97     0   244  3201     0     0     0     0     0   553
 Pair Stats:
 considered 14, high end compl 12, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X9
@@ -2174,7 +2174,7 @@
 Right   4248     0   289     0    80     0   415  2693     0     0     0    23     0   748
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X10
@@ -2245,7 +2245,7 @@
 Right   4621     0   289     0     8     0   474  3110     0     0     0    22     0   718
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X11
@@ -2316,7 +2316,7 @@
 Right   4762     0   289     0   176     0   739  2528     0     0     0    13     0  1017
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X12
@@ -2390,7 +2390,7 @@
 Right   4914     0   289     0    83     0   976  2660     0     0     0     0     0   906
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X13
@@ -2458,7 +2458,7 @@
 Right   3804     0   289     0     0     0   873  1715     0     5     0     0     0   922
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2_X14
@@ -2526,7 +2526,7 @@
 Right   3944     0   289     0    74     0   898  1848     0     2     0     0     0   833
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2R_X1
@@ -2576,7 +2576,7 @@
 Right    951     0   226     0   209     0     0   510     0     0     0     0     0     6
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2R_X2-seg1
@@ -2644,7 +2644,7 @@
 Right   6710     0     0     0     4     0  1540  3376     0     0     2     0     0  1788
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F2R_X2-seg2
@@ -2715,7 +2715,7 @@
 Right   6997     0     0     0   109     0  2483  2360     0     0     0    22     0  2023
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F3_X1
@@ -2783,7 +2783,7 @@
 Right   4094     0   289     0   716     0   101  2783     0     0     0     0     0   205
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F3_X2
@@ -2851,7 +2851,7 @@
 Right   4214     0   289     0   232     0  1968   682     0     0     0     0     0  1043
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F3_X3
@@ -2925,7 +2925,7 @@
 Right   5005     0   289     0   185     0  1231  1945     0     0     0    11     0  1344
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F3_X4
@@ -2996,7 +2996,7 @@
 Right   4770     0   289     0   176     0  1330  1913     0     0     0    21     0  1041
 Pair Stats:
 considered 36, high end compl 33, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F3_X5
@@ -3067,7 +3067,7 @@
 Right   4397     0   289     0    28     0  1323  1565     0     4     0    44     0  1144
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F3_X6
@@ -3138,7 +3138,7 @@
 Right   4311     0   289     0    51     0  1766   895     0     0     0    22     0  1288
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F5_X10
@@ -3188,7 +3188,7 @@
 Right   2435     0    50     0     0     0  1068   632     0     0     0     0     0   685
 Pair Stats:
 considered 18, high end compl 16, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X1
@@ -3256,7 +3256,7 @@
 Right   3734     0   289     0    17     0   289  2735     0     1     0     0     0   403
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X2
@@ -3324,7 +3324,7 @@
 Right   3601     0   289     0    16     0   390  2278     0     0     0    22     0   606
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X2'
@@ -3395,7 +3395,7 @@
 Right   4704     0   289     0  1078     0   138  2874     0     0     0     0     0   325
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X3
@@ -3460,7 +3460,7 @@
 Right   3344     0   289     0     0     0   284  2312     8    13     7     0     0   431
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X4
@@ -3528,7 +3528,7 @@
 Right   4234     0   289     0    81     0   378  2891     0     0     0     0     0   595
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X5
@@ -3599,7 +3599,7 @@
 Right   4504     0   289     0     1     0   499  3030     0     0     2     0     0   683
 Pair Stats:
 considered 20, high any compl 8, high end compl 10, ok 2
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X6
@@ -3667,7 +3667,7 @@
 Right   3894     0   289     0    11     0   463  2371     0     1     0    44     0   715
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X7
@@ -3738,7 +3738,7 @@
 Right   4181     0   289     0    10     0   236  3155     0     5     0    22     0   464
 Pair Stats:
 considered 126, high any compl 28, high end compl 97, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR F7_X8
@@ -3830,7 +3830,7 @@
 Right   9054     0   289     0    79     0  1105  6374     0     1     0     0     0  1206
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HCF2_X2
@@ -3940,7 +3940,7 @@
 Right  12144     0   289     0    15     0  3651  4687     0     7     0     0     0  3495
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HCF2_X3
@@ -4017,7 +4017,7 @@
 Right   5393     0   289     0    28     0  1331  2335    19     7     0    67     0  1317
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HCF2_X4
@@ -4088,7 +4088,7 @@
 Right   4238     0   289     0    20     0   420  2770     0     0     0    44     0   695
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HCF2_X5
@@ -4195,7 +4195,7 @@
 Right  11432     0   289     0    57     0  2518  5947     0    12     0    20     0  2589
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X1
@@ -4239,7 +4239,7 @@
 Right   1490     0    65     0     0     0   478   584     0     0     0     0     0   363
 Pair Stats:
 considered 11, high end compl 10, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X2
@@ -4277,7 +4277,7 @@
 Right    770     0     0     0    11     0   448    81     7     1     0     0     0   222
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X3
@@ -4315,7 +4315,7 @@
 Right    530     0     0     0     1     0   416     4     0     0     0     0     0   109
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X4
@@ -4353,7 +4353,7 @@
 Right    500     0     0     0     0     0   123   202     0     0     0     0     0   175
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X5
@@ -4391,7 +4391,7 @@
 Right    710     0     0     0     0     0   202   248     0     1     1     0     0   258
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X6
@@ -4429,7 +4429,7 @@
 Right    720     0     0     0     0     0   181   338     0     0     0     0     0   201
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X7
@@ -4467,7 +4467,7 @@
 Right    820     0     0     0     3     0   237   349     0     0     0     0     0   231
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X8
@@ -4508,7 +4508,7 @@
 Right   1260     0     0     0     0     0   530   315     0     0    20     0     0   395
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X9
@@ -4555,7 +4555,7 @@
 Right   1977     0     0     0     0     0  1125   203     0     0     0    22     0   627
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X10
@@ -4593,7 +4593,7 @@
 Right    550     0     0     0     0     0   227   116     0     0     0     0     0   207
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X11
@@ -4631,7 +4631,7 @@
 Right    540     0     0     0     0     0   181   215     0     0     0     0     0   144
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X12
@@ -4675,7 +4675,7 @@
 Right   1600     0     0     0     0     0   707   324     0     0     0     0     0   569
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X13
@@ -4716,7 +4716,7 @@
 Right   1240     0     0     0     1     0   280   628     0     0     0     0     0   331
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X14
@@ -4757,7 +4757,7 @@
 Right   1230     0     0     0     0     0   122   805     0     0     0     0     0   303
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X15
@@ -4795,7 +4795,7 @@
 Right    710     0     0     0     0     0   172   343     0     0     0     0     0   195
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X16
@@ -4836,7 +4836,7 @@
 Right   1360     0     0     0     0     0   616   248     0     1     0     0     0   495
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X17
@@ -4877,7 +4877,7 @@
 Right   1060     0     0     0     1     0   217   601     0     0     0     0     0   241
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X18
@@ -4918,7 +4918,7 @@
 Right   1240     0     0     0    18     0   504   411     0     0     0     0     0   307
 Pair Stats:
 considered 62, high end compl 59, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X19
@@ -4959,7 +4959,7 @@
 Right   1200     0     0     0     0     0   167   784     0     0     0     0     0   249
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR HMGCR_X20
@@ -5000,6 +5000,6 @@
 Right   1150     0     0     0    42     0   311   512    26     3     0    20     0   236
 Pair Stats:
 considered 1, ok 1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_task_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_task_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_task_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -44,7 +44,7 @@
 Right      1     0     0     0     0     0     0     0     0     0     0     0     1
 Pair Stats:
 considered 3, ok 3
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR pcr_primers_and_io
@@ -113,7 +113,7 @@
 Intl     393   280     0     0     0     0    30    46     0     0     3     0    34
 Pair Stats:
 considered 7, ok 7
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR left_only
@@ -152,7 +152,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left    1121    38    23     0     0     0    42   866     0     0     0     0   152
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR right_only
@@ -191,7 +191,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Right    623    27    36     0     5     0   230   145     0     6     0     0   174
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR hyb_probe_only
@@ -228,7 +228,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Intl    1040    27     0    33     0     0    44   804     0     0     0     0   132
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR left_only
@@ -253,7 +253,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR right_only
@@ -278,7 +278,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR hyb_probe_only
@@ -303,6 +303,6 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 

Modified: trunk/packages/primer3/branches/upstream/current/test/primer_tm_lc_masking_formatted_output
===================================================================
--- trunk/packages/primer3/branches/upstream/current/test/primer_tm_lc_masking_formatted_output	2007-03-31 02:28:00 UTC (rev 236)
+++ trunk/packages/primer3/branches/upstream/current/test/primer_tm_lc_masking_formatted_output	2007-03-31 23:30:01 UTC (rev 237)
@@ -20,7 +20,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 001
@@ -45,7 +45,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 002
@@ -70,7 +70,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 100
@@ -88,7 +88,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end  case      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab   end  ok  
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1     0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 101
@@ -113,7 +113,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end  case      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab   end  ok  
 Left       1     0     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 102
@@ -138,7 +138,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 010
@@ -163,7 +163,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 011
@@ -188,7 +188,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 012
@@ -213,7 +213,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 110
@@ -231,7 +231,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end  case      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab   end  ok  
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1     0
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 111
@@ -256,7 +256,7 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end  case      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab   end  ok  
 Left       1     0     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 
 PRIMER PICKING RESULTS FOR 112
@@ -281,6 +281,6 @@
          sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
         ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
 Left       1     0     0     0     0     0     0     0     0     0     0     0     1
-primer3 release 1.1.0
+primer3 release 1.1.1
 
 




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