/gfalint

Check a GFA file for syntax errors
  1. Yacc 43.5%
  2. C++ 28.4%
  3. Lex 12.4%
  4. Makefile 8.7%
  5. M4 5.4%
  6. Shell 1.6%
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Latest commit 718e6f0 Jun 7, 2017 @sjackman gfay.y: Variance of a gap is optional 
Fixes sjackman/gfalint#2
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examples Add big2.gfa Apr 5, 2017
.gitignore .gitignore: Add gfalint and test-driver Jan 3, 2017
.travis.yml Add .travis.yml Jan 3, 2017
LICENSE.md Add LICENSE.md Sep 28, 2016
Makefile.am Add tests for make check Jan 3, 2017
README.md Add insructions to compile and run gfalint Sep 29, 2016
autogen.sh Add autogen.sh configure.ac Makefile.am Sep 28, 2016
configure.ac configure.ac: Use parallel-tests automake option Jan 4, 2017
gfal.l Update GFA 2 for oriented segment references Jan 4, 2017
gfalint.cc gfalint.cc: Exit unsuccessfully if parsing fails Jan 3, 2017
gfay.y gfay.y: Variance of a gap is optional Jun 6, 2017
test-driver-gfa Add tests for make check Jan 3, 2017

README.md

gfalint: Check a GFA file for syntax errors

Graphical Fragment Assembly (GFA) is a genome sequence assembly graph file format.

See the Graphical Fragment Assembly (GFA) Format Specification.

Compile gfalint

./autogen.sh
./configure
make

Run gfalint

./gfalint <examples/sample1.gfa
./gfalint <examples/sample2.gfa