Commits · master · R3 / legacy / megahit

10 Jul, 2015 1 commit
- release v0.3.3-a · 408161e1
  voutcn authored Jul 10, 2015
  
  408161e1
08 Jul, 2015 2 commits
- Merge branch 'hotfix/fix-max-read-len' · dd4db11e
  voutcn authored Jul 09, 2015
  
  dd4db11e
- fixed input-cmd not work · 42c0c874
  voutcn authored Jul 09, 2015
  
  42c0c874
04 Jul, 2015 3 commits
- fix incorrect max read length of in different read lib · ca624771
  voutcn authored Jul 05, 2015
  
  ca624771
- Merge branch 'dev' · 0b1c1d9e
  voutcn authored Jul 04, 2015
  
  0b1c1d9e
- print use integer for avg length -> https://github.com/voutcn/megahit/issues/53 · 86945c64
  voutcn authored Jul 04, 2015
  
  86945c64
03 Jul, 2015 1 commit
- releasing v0.3.3 · 97686c45
  voutcn authored Jul 03, 2015
  
  97686c45
02 Jul, 2015 4 commits
- use realloc in atomic bit vector · 58e255df
  voutcn authored Jul 02, 2015
  
  58e255df
- optimise fwd and bwd · 8f7151bc
  voutcn authored Jul 02, 2015
  
  8f7151bc
- fixed segfault when read length is 0 · b177c734
  voutcn authored Jul 02, 2015
  
  b177c734
- correct contig avg multiplicity · 3743e949
  voutcn authored Jul 02, 2015
  
  3743e949
01 Jul, 2015 1 commit
- slightly modify definitions.h and Makefile · fcc7d617
  voutcn authored Jul 01, 2015
  
  fcc7d617
30 Jun, 2015 1 commit
- write opts.txt before writing read lib to file · ba0d3c2e
  voutcn authored Jun 30, 2015
  
  ba0d3c2e
28 Jun, 2015 8 commits
- update Travis link · 93f8f026
  voutcn authored Jun 29, 2015
  
  93f8f026
- fixed version · e8c06c16
  voutcn authored Jun 29, 2015
  
  e8c06c16
- update ChangeLog · c9a0e35f
  voutcn authored Jun 28, 2015
  
  c9a0e35f
- Merge pull request #49 from voutcn/dev · 849118bb
  Dinghua Li authored Jun 28, 2015
```
Dev
```
  849118bb
- fine tune mercy memory · 1ade9b49
  voutcn authored Jun 28, 2015
  
  1ade9b49
- reserve space for contigs when building sdbg · 82df8686
  voutcn authored Jun 28, 2015
  
  82df8686
- forgot to commit sequence_manager.cpp · cbb99acb
  voutcn authored Jun 28, 2015
  
  cbb99acb
- preprocess to convert reads to binary before counting & building; in the way... · 9530ee10
  voutcn authored Jun 28, 2015
```
preprocess to convert reads to binary before counting & building; in the way we can reserve exact memory for packed reads to avoid any wastes of spaces (a case is https://github.com/voutcn/megahit/issues/47)
```
  9530ee10
27 Jun, 2015 4 commits
- fixed Can't convert 'bytes' object to str implicitly · 769f90cf
  voutcn authored Jun 27, 2015
  
  769f90cf
- dump version from sub-programs instead of hard code in megahit script · 5de21e6f
  voutcn authored Jun 27, 2015
  
  5de21e6f
- check memory usage immediately after reading edges/sequences · 1bf6fb2a
  voutcn authored Jun 27, 2015
  
  1bf6fb2a
- refer users to the log file when error occurs · 2cbdaa79
  voutcn authored Jun 27, 2015
```
check memory usage immediately after reading all reads
disable assertion for PE in sequence_manager functions
```
  2cbdaa79
26 Jun, 2015 2 commits
- discard parallel output of iterative edges: overhead too big · e9171d87
  voutcn authored Jun 26, 2015
  
  e9171d87
- use buffer for iterative edge output · 863a5613
  voutcn authored Jun 26, 2015
  
  863a5613
25 Jun, 2015 5 commits
- softcode sdbg maxk · f551840b
  voutcn authored Jun 25, 2015
  
  f551840b
- parallel iterative edge output · db61ca28
  voutcn authored Jun 25, 2015
  
  db61ca28
- use histgram instead of manually counting std::map · 1b4fb2cb
  voutcn authored Jun 25, 2015
  
  1b4fb2cb
- Merge branch 'master' into dev · 050f5feb
  voutcn authored Jun 25, 2015
```
* master:
  update change log; releasing v0.3.0-beta3
  update README fixed "Can't convert 'bytes' object to str implicitly" add make release entry
```
  050f5feb
- modify Makefile to for automatically finding CUDA lib · 00eacacb
  voutcn authored Jun 25, 2015
  
  00eacacb
24 Jun, 2015 1 commit
- adjust omp schedule of local assembler; · 4f3deb53
  voutcn authored Jun 24, 2015
```
update README
```
  4f3deb53
23 Jun, 2015 1 commit
- set local assembly omp schedule · e7208541
  voutcn authored Jun 23, 2015
  
  e7208541
22 Jun, 2015 4 commits
- update change log; releasing v0.3.0-beta3 · 01bc4058
  voutcn authored Jun 22, 2015
  
  01bc4058
- update README · 88045faf
  voutcn authored Jun 22, 2015
```
fixed "Can't convert 'bytes' object to str implicitly"
add make release entry
```
  88045faf
- write read file names + # of reads to log file · bc9fcdd9
  voutcn authored Jun 22, 2015
  
  bc9fcdd9
- add '--verbose' option · 8abca4ff
  voutcn authored Jun 22, 2015
  
  8abca4ff
21 Jun, 2015 2 commits
- print read files to log (but # of reads not printed); suggested by... · 24a49c9c
  voutcn authored Jun 21, 2015
```
print read files to log (but # of reads not printed); suggested by https://github.com/voutcn/megahit/issues/46
```
  24a49c9c
- print assembly stat; suggested by https://github.com/voutcn/megahit/issues/45 · 30016933
  voutcn authored Jun 21, 2015
  
  30016933