added MIT license to some non-GPL source files
This commit is contained in:
Heng Li
parent
3a2b0c05dd
commit
436aceb4ef
7
bntseq.c
7
bntseq.c
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@ -1,6 +1,8 @@
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/* The MIT License
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/* The MIT License
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Copyright (c) 2008 Genome Research Ltd (GRL).
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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a copy of this software and associated documentation files (the
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@ -22,9 +24,6 @@
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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SOFTWARE.
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*/
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*/
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/* Contact: Heng Li <lh3@sanger.ac.uk> */
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#include <stdio.h>
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#include <stdio.h>
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#include <stdlib.h>
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#include <stdlib.h>
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#include <string.h>
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#include <string.h>
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6
bntseq.h
6
bntseq.h
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@ -1,6 +1,8 @@
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/* The MIT License
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/* The MIT License
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Copyright (c) 2008 Genome Research Ltd (GRL).
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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a copy of this software and associated documentation files (the
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@ -23,8 +25,6 @@
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SOFTWARE.
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SOFTWARE.
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*/
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*/
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/* Contact: Heng Li <lh3@sanger.ac.uk> */
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#ifndef BWT_BNTSEQ_H
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#ifndef BWT_BNTSEQ_H
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#define BWT_BNTSEQ_H
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#define BWT_BNTSEQ_H
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26
bwa.c
26
bwa.c
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@ -1,3 +1,29 @@
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/* The MIT License
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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"Software"), to deal in the Software without restriction, including
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without limitation the rights to use, copy, modify, merge, publish,
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distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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the following conditions:
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The above copyright notice and this permission notice shall be
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included in all copies or substantial portions of the Software.
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||||||
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#include <string.h>
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#include <string.h>
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#include <stdio.h>
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#include <stdio.h>
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#include <zlib.h>
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#include <zlib.h>
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26
bwa.h
26
bwa.h
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@ -1,3 +1,29 @@
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/* The MIT License
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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"Software"), to deal in the Software without restriction, including
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without limitation the rights to use, copy, modify, merge, publish,
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distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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the following conditions:
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The above copyright notice and this permission notice shall be
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included in all copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#ifndef BWA_H_
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#ifndef BWA_H_
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#define BWA_H_
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#define BWA_H_
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26
bwamem.c
26
bwamem.c
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@ -1,3 +1,29 @@
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/* The MIT License
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||||||
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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"Software"), to deal in the Software without restriction, including
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without limitation the rights to use, copy, modify, merge, publish,
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distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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the following conditions:
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The above copyright notice and this permission notice shall be
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included in all copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#include <stdlib.h>
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#include <stdlib.h>
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#include <string.h>
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#include <string.h>
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#include <stdio.h>
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#include <stdio.h>
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26
bwamem.h
26
bwamem.h
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@ -1,3 +1,29 @@
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/* The MIT License
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||||||
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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"Software"), to deal in the Software without restriction, including
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without limitation the rights to use, copy, modify, merge, publish,
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distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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the following conditions:
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The above copyright notice and this permission notice shall be
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included in all copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#ifndef BWAMEM_H_
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#ifndef BWAMEM_H_
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#define BWAMEM_H_
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#define BWAMEM_H_
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@ -1,3 +1,29 @@
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/* The MIT License
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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"Software"), to deal in the Software without restriction, including
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||||||
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without limitation the rights to use, copy, modify, merge, publish,
|
||||||
|
distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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||||||
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the following conditions:
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||||||
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||||||
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The above copyright notice and this permission notice shall be
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included in all copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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||||||
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#include <limits.h>
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#include <limits.h>
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#include "bwa.h"
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#include "bwa.h"
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#include "bwamem.h"
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#include "bwamem.h"
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@ -1,3 +1,29 @@
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/* The MIT License
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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"Software"), to deal in the Software without restriction, including
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without limitation the rights to use, copy, modify, merge, publish,
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distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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the following conditions:
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||||||
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The above copyright notice and this permission notice shall be
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included in all copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#include <stdlib.h>
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#include <stdlib.h>
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#include <string.h>
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#include <string.h>
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#include <stdio.h>
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#include <stdio.h>
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6
bwt.h
6
bwt.h
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@ -1,6 +1,8 @@
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/* The MIT License
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/* The MIT License
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Copyright (c) 2008 Genome Research Ltd (GRL).
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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a copy of this software and associated documentation files (the
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@ -23,7 +25,7 @@
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SOFTWARE.
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SOFTWARE.
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*/
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*/
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/* Contact: Heng Li <lh3@sanger.ac.uk> */
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/* Contact: Heng Li <hli@jimmy.harvard.edu> */
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#ifndef BWA_BWT_H
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#ifndef BWA_BWT_H
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#define BWA_BWT_H
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#define BWA_BWT_H
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@ -1,6 +1,8 @@
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/* The MIT License
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/* The MIT License
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Copyright (c) 2008 Genome Research Ltd (GRL).
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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a copy of this software and associated documentation files (the
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@ -22,9 +24,6 @@
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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SOFTWARE.
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*/
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*/
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/* Contact: Heng Li <lh3@sanger.ac.uk> */
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#include <stdio.h>
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#include <stdio.h>
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#include <stdlib.h>
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#include <stdlib.h>
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#include <string.h>
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#include <string.h>
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26
fastmap.c
26
fastmap.c
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@ -1,3 +1,29 @@
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/* The MIT License
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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a copy of this software and associated documentation files (the
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||||||
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"Software"), to deal in the Software without restriction, including
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without limitation the rights to use, copy, modify, merge, publish,
|
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distribute, sublicense, and/or sell copies of the Software, and to
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permit persons to whom the Software is furnished to do so, subject to
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the following conditions:
|
||||||
|
|
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The above copyright notice and this permission notice shall be
|
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included in all copies or substantial portions of the Software.
|
||||||
|
|
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
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||||||
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BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
|
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ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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*/
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#include <zlib.h>
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#include <zlib.h>
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#include <stdio.h>
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#include <stdio.h>
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#include <unistd.h>
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#include <unistd.h>
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6
utils.c
6
utils.c
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@ -1,6 +1,8 @@
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/* The MIT License
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/* The MIT License
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Copyright (c) 2008 Genome Research Ltd (GRL).
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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Permission is hereby granted, free of charge, to any person obtaining
|
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a copy of this software and associated documentation files (the
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a copy of this software and associated documentation files (the
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@ -22,8 +24,6 @@
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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SOFTWARE.
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*/
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*/
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/* Contact: Heng Li <lh3@sanger.ac.uk> */
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#define FSYNC_ON_FLUSH
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#define FSYNC_ON_FLUSH
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#include <stdio.h>
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#include <stdio.h>
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7
utils.h
7
utils.h
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@ -1,6 +1,8 @@
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/* The MIT License
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/* The MIT License
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|
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Copyright (c) 2008 Genome Research Ltd (GRL).
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Copyright (c) 2018- Dana-Farber Cancer Institute
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2009-2018 Broad Institute, Inc.
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2008-2009 Genome Research Ltd. (GRL)
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Permission is hereby granted, free of charge, to any person obtaining
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Permission is hereby granted, free of charge, to any person obtaining
|
||||||
a copy of this software and associated documentation files (the
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a copy of this software and associated documentation files (the
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@ -22,9 +24,6 @@
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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||||||
SOFTWARE.
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SOFTWARE.
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*/
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*/
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/* Contact: Heng Li <lh3@sanger.ac.uk> */
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#ifndef LH3_UTILS_H
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#ifndef LH3_UTILS_H
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#define LH3_UTILS_H
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#define LH3_UTILS_H
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||||||
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