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Multiple overlaps of genomic regions
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src
file
fileformat.hh
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/* <LICENSE>
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License for the MULTOVL multiple genomic overlap tools
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Copyright (c) 2007-2012, Dr Andras Aszodi,
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Campus Science Support Facilities GmbH (CSF),
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Dr-Bohr-Gasse 3, A-1030 Vienna, Austria, Europe.
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All rights reserved.
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Redistribution and use in source and binary forms, with or without
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modification, are permitted provided that the following conditions are
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met:
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* Redistributions of source code must retain the above copyright notice,
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this list of conditions and the following disclaimer.
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* Redistributions in binary form must reproduce the above copyright notice,
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this list of conditions and the following disclaimer in the documentation
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and/or other materials provided with the distribution.
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* Neither the name of the Campus Science Support Facilities GmbH
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nor the names of its contributors may be used to endorse
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or promote products derived from this software without specific prior
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written permission.
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THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS
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AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES,
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INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY
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AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL
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THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT,
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INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
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NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF
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USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
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ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
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(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF
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THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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</LICENSE> */
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#ifndef MULTOVL_FILEFORMAT_HEADER
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#define MULTOVL_FILEFORMAT_HEADER
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// == HEADER fileformat.hh ==
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// -- Standard headers --
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#include <string>
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namespace
multovl {
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namespace
io {
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class
Fileformat
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{
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public
:
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enum
Kind {
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UNKNOWN = 0,
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BED = 1,
// these are ASCII...
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GFF2 = 2,
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GFF3 = 4,
// also GTF
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GFF = 6,
// GFF2 | GFF3
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BAM = 8
// this is binary
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};
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static
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Kind
from_filename
(
const
std::string& filenm);
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static
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std::string
to_string
(Kind format);
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static
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std::string
known_extensions
();
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private
:
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static
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Kind from_string(
const
std::string& fstr);
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};
// class Fileformat
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}
// namespace io
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}
// namespace multovl
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#endif // MULTOVL_FILEFORMAT_HEADER
multovl::io::Fileformat
Definition:
fileformat.hh:56
multovl::io::Fileformat::known_extensions
static std::string known_extensions()
multovl::io::Fileformat::to_string
static std::string to_string(Kind format)
multovl::io::Fileformat::from_filename
static Kind from_filename(const std::string &filenm)
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