license under GPL v2+

biod · Aug 6, 2012 · b46e95d · b46e95d
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diff --git a/CLItools/common/comparators.d b/CLItools/common/comparators.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 /* Contains comparison functions for alignment records */
 module common.comparators;
 

diff --git a/CLItools/common/nwayunion.d b/CLItools/common/nwayunion.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module common.nwayunion;
 
 // copy-pasted from std.algorithm. The only difference is that front is not a ref.

diff --git a/CLItools/common/progressbar.d b/CLItools/common/progressbar.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 /** module for showing progressbar */
 module common.progressbar;
 

diff --git a/CLItools/sambamba-flagstat/flagstat.d b/CLItools/sambamba-flagstat/flagstat.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module sambamba.flagstat;
 
 /// port of samtools flagstat tool

diff --git a/CLItools/sambamba-index/index.d b/CLItools/sambamba-index/index.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module sambamba.index;
 
 import std.stdio;

diff --git a/CLItools/sambamba-merge/merge.d b/CLItools/sambamba-merge/merge.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module sambamba.merge;
 /*
    Merging.

diff --git a/CLItools/sambamba-sort/sort.d b/CLItools/sambamba-sort/sort.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module sambamba.sort;
 
 import bamfile;

diff --git a/CLItools/sambamba-view/alignmentrangeprocessor.d b/CLItools/sambamba-view/alignmentrangeprocessor.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module alignmentrangeprocessor;
 
 import bamfile;

diff --git a/CLItools/sambamba-view/filtering.d b/CLItools/sambamba-view/filtering.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 /**
   Set of filters for alignments. 
   All share a common interface and can be easily combined.

diff --git a/CLItools/sambamba-view/headerserializer.d b/CLItools/sambamba-view/headerserializer.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module headerserializer;
 
 import samheader;

diff --git a/CLItools/sambamba-view/queryparser.d b/CLItools/sambamba-view/queryparser.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 import filtering;
 import utils.pratt_parser;
 

diff --git a/CLItools/sambamba-view/view.d b/CLItools/sambamba-view/view.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 module sambamba.view;
 
 import bamfile;

diff --git a/CLItools/sambamba/main.d b/CLItools/sambamba/main.d
@@ -1,3 +1,22 @@
+/*
+    This file is part of Sambamba.
+    Copyright (C) 2012    Artem Tarasov <lomereiter@gmail.com>
+
+    Sambamba is free software; you can redistribute it and/or modify
+    it under the terms of the GNU General Public License as published by
+    the Free Software Foundation; either version 2 of the License, or
+    (at your option) any later version.
+
+    Sambamba is distributed in the hope that it will be useful,
+    but WITHOUT ANY WARRANTY; without even the implied warranty of
+    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+    GNU General Public License for more details.
+
+    You should have received a copy of the GNU General Public License
+    along with this program; if not, write to the Free Software
+    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+
+*/
 import sambamba.view;
 import sambamba.index;
 import sambamba.merge;