ctSkennerton crass issues

ctSkennerton / crass

The CRISPR assembler

http://ctskennerton.github.io/crass

GNU General Public License v3.0

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issues

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bad alloc in workhorse

#53 ctSkennerton closed 12 years ago
1
outputted fasta files do not match groups reported by crisprtools stat

#52 ctSkennerton closed 12 years ago
0
option removeHomopolymers causing crash

#51 ctSkennerton closed 12 years ago
3
crisprtools extract seg fault

#50 ctSkennerton closed 12 years ago
1
crisprtools stat inaccurate read count

#49 ctSkennerton closed 12 years ago
1
crisprtools sanitise does not change associated files

#48 ctSkennerton closed 12 years ago
1
crisprtools stat seg fault

#47 ctSkennerton closed 12 years ago
0
crisprtools sanitise does nothing without options

#46 ctSkennerton closed 12 years ago
0
crisprtools extract should print to stdout where possible

#45 ctSkennerton closed 12 years ago
1
figure out why nr_repeats misses some reads

#44 ctSkennerton closed 12 years ago
0
crisprtools stat read number output wrong

#43 ctSkennerton closed 12 years ago
0
Seg fault in EBPR metagenomes

#42 ctSkennerton closed 12 years ago
0
Regression of performance in AMD data

#41 ctSkennerton closed 12 years ago
0
speed improvements

#40 ctSkennerton closed 9 years ago
0
crisprtools rm

#39 ctSkennerton closed 12 years ago
0
crisprtools stat --header option doesn't work

#38 ctSkennerton closed 12 years ago
0
32bit build issues

#37 ctSkennerton closed 9 years ago
0
Output files not being written silently

#36 ctSkennerton closed 12 years ago
0
Seg fault for JCVI_SMPL_1103283000005.fa

#35 ctSkennerton closed 12 years ago
4
Smith-Waterman alignments going past end of sequence

#34 ctSkennerton closed 12 years ago
2
graphviz files can contain no spacers

#33 ctSkennerton closed 12 years ago
0
seg fault in graph builder

#32 ctSkennerton closed 12 years ago
1
change reads output file name based on format

#31 ctSkennerton closed 12 years ago
0
Colour code graph by file

#30 ctSkennerton closed 9 years ago
0
Some direct repeats are not in their laurenized form

#29 ctSkennerton closed 12 years ago
0
add full path names into files in the xml file

#28 ctSkennerton closed 12 years ago
0
duplication of some groups

#27 ctSkennerton closed 9 years ago
1
Unwanted files getting installed

#26 ctSkennerton closed 9 years ago
0
Fix seg fault in Workhorse line 633

#25 ctSkennerton closed 12 years ago
0
Determine why nodes in bubble removal have less than 2 edges

#24 ctSkennerton closed 12 years ago
1
remove direct repeats from groups if a kmer cannot be placed

#23 ctSkennerton closed 12 years ago
0
Put in the key generating functions

#22 ctSkennerton closed 12 years ago
0
XML printing should be done with Xerces

#21 ctSkennerton closed 12 years ago
0
flankers need to be properly implemented in the printXML function

#20 ctSkennerton closed 12 years ago
0
long 'spacers' need to be annotated as flanking sequences

#19 ctSkennerton closed 12 years ago
0
graphs need more cleaning

#18 ctSkennerton closed 12 years ago
0
some group do not get assigned coverage

#17 ctSkennerton closed 12 years ago
0
Make .crispr more general format

#16 ctSkennerton closed 12 years ago
0
number of reads is different in output compared to internal representations

#15 ctSkennerton closed 12 years ago
1
Segmentation fault WorkHorse:421

#14 ctSkennerton closed 12 years ago
2
The specificity needs to be improved

#13 ctSkennerton closed 12 years ago
1
contigs are not joined in spacer graph

#12 ctSkennerton closed 12 years ago
0
dynamically set value of 'B' in WuManber

#11 ctSkennerton closed 13 years ago
0
add paired end assembly to the AssemblyWrapper

#10 ctSkennerton closed 9 years ago
0
Update readme and man files

#9 ctSkennerton closed 12 years ago
0
fix throw calls in AssemblyWrapper and CrassXML

#8 ctSkennerton closed 13 years ago
0
CrassXML constructor does not match the dtd

#7 ctSkennerton closed 13 years ago
0
bubble not corrected when it begins with a jumping edge

#6 ctSkennerton closed 12 years ago
0
reduce memory allocations in libCrispr

#5 ctSkennerton closed 12 years ago
0
add templating to WuManber search

#4 ctSkennerton closed 12 years ago
0

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