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315 error in bowtie2 v0.9.0 closed 2014-06-10 2014-06-19 5  
314 bowtie2-inspect crash v0.9.0 closed 2014-05-19 2014-06-11 5  
313 BOWTIE2 => (ERR): Could not open --un-conc mate-1 output file ... at line 402 v0.9.0 closed 2014-05-19 2014-06-11 5  
311 Results on reverse complement reads v0.9.0 closed 2014-05-14 2014-06-18 7  
305 bowtie2-align died with signal 6 (ABRT) v0.9.0 closed 2014-03-26 2014-03-26 4  
302 Bowtie2 alignment speed very slow for many Ns in the reference sequence v0.9.0 closed 2014-02-26 2014-04-08 5  
301 Can't run new bowtie2.2 v0.9.0 closed Val 2014-02-19 2014-02-20 5  
300 Bowtie2 error: Getopt::Long module v0.9.0 closed Val 2014-02-17 2014-02-17 5  
297 Bowtie2 2.1.0 win32 bowtie2-align.exe crashes in Windows XP v0.9.0 closed Val 2013-12-19 2014-06-11 5  
296 bowtie2-2.1.0 not always respecting -N 0 v0.9.0 closed Val 2013-12-06 2014-02-28 5  
295 tophat2 - Encountered internal Bowtie 2 exception (#1) v0.9.0 closed Val 2013-12-05 4 hours ago 5  
293 call_genotype.cc line 107 v0.9.0 closed 2013-11-28 2013-12-04 5  
292 bowtie2 only map reverse-complement reference strand v0.9.0 closed 2013-10-16 2013-12-04 5  
291 Changing the order of the paired read files changes the output v0.9.0 closed 2013-09-09 2013-09-27 5  
290 s3://myrna-emr/ bucket private? v0.9.0 closed 2013-08-20 2014-02-12 5  
289 Bowtie hangs - specific situation related to VMs v0.9.0 closed Val 2013-08-15 2014-01-30 5  
288 unaligned reads to fastq: --un and --no-unal conflict is back in ver 2.1.0 v0.9.0 closed Val 2013-07-29 2014-02-28 2  
287 bowtie2-build 64-bit not able to build more than 32bit v0.9.0 closed Val 2013-07-16 2014-01-30 1  
284 Bos Taurus Index v0.9.0 closed Val 2013-05-07 2014-03-05 5  
283 SAM header info for @PG tags v0.9.0 closed Val 2013-04-22 2014-01-29 5  
282 Makefile does not detect 64 bit Linux (bowtie 1.0.0) None closed-fixed 2013-04-18 2013-04-18 5  
279 Bowtie2 2.1.0 missing unmapped reads for --un-conc v0.9.0 closed Val 2013-02-26 2014-02-28 5  
278 Many unique matches in some regions missed with -m 1 None closed 2013-02-18 2013-03-14 5  
277 Many Unique matches in some regions missed when -m 1 used v0.9.0 closed-duplicate 2013-02-18 2013-02-18 1  
274 Memory Leak on 64-bit Linux: with solution None closed-accepted 2013-01-31 2013-02-28 5  
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