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95 rader
3.1 KiB
95 rader
3.1 KiB
/*
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This file is part of BioD.
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Copyright (C) 2012 Artem Tarasov <lomereiter@gmail.com>
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Permission is hereby granted, free of charge, to any person obtaining a
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copy of this software and associated documentation files (the "Software"),
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to deal in the Software without restriction, including without limitation
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the rights to use, copy, modify, merge, publish, distribute, sublicense,
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and/or sell copies of the Software, and to permit persons to whom the
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Software is furnished to do so, subject to the following conditions:
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The above copyright notice and this permission notice shall be included in
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all copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
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FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
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DEALINGS IN THE SOFTWARE.
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*/
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module bio.core.bgzf.virtualoffset;
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import std.conv;
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/// Structure representing virtual offset in BGZF-compressed file.
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struct VirtualOffset {
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/// Params:
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///
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/// coffset = unsigned byte offset into the BGZF file
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/// to the beginning of a BGZF block.
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/// Must be strictly less than 2^48.
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///
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/// uoffset = unsigned byte offset into the uncompressed
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/// data stream represented by that BGZF block
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this(ulong coffset, ushort uoffset) nothrow
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in {
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assert(coffset < (1UL<<48));
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}
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body {
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voffset = (coffset << 16) | uoffset;
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}
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/// Set both coffset and uoffset packed as (coffset<<16)|uoffset
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this(ulong voffset) nothrow {
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this.voffset = voffset;
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}
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/// ditto
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ulong coffset() @property const nothrow {
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return voffset >> 16;
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}
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/// ditto
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ushort uoffset() @property const nothrow {
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return voffset & 0xFFFF;
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}
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int opCmp(const ref VirtualOffset other) const nothrow {
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if (this.voffset > other.voffset) { return 1; }
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if (this.voffset < other.voffset) { return -1; }
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return 0;
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}
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bool opEquals(const ref VirtualOffset other) const nothrow {
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return this.voffset == other.voffset;
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}
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bool opEquals(ulong voffset) const nothrow {
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auto vo = VirtualOffset(voffset);
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return opEquals(vo);
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}
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ulong opCast() const nothrow {
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return voffset;
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}
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/// String representation in format "<coffset>/<uoffset>"
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string toString() {
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return to!string(coffset) ~ "/" ~ to!string(uoffset);
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}
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private:
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ulong voffset;
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}
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unittest {
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auto voffset = VirtualOffset(100500, 42);
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assert(voffset.coffset == 100500);
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assert(voffset.uoffset == 42);
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assert(voffset == (100500UL << 16) + 42UL);
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assert(cast(ulong)voffset == (100500UL << 16) + 42UL);
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}
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