Function outputSortedPaths

MergePaths/MergePaths.cpp:739–761

Sort and output the specified paths. */

/** Sort and output the specified paths. */
static void
outputSortedPaths(const Lengths& lengths, const ContigPathMap& paths)
{
	// Sort the paths.
	vector<ContigPath> sortedPaths(paths.size());
	transform(
	    paths.begin(),
	    paths.end(),
	    sortedPaths.begin(),
	    mem_var(&ContigPathMap::value_type::second));
	sort(sortedPaths.begin(), sortedPaths.end());

	// Output the paths.
	ofstream fout(opt::out.c_str());
	ostream& out = opt::out.empty() ? cout : fout;
	assert_good(out, opt::out);
	for (vector<ContigPath>::const_iterator it = sortedPaths.begin(); it != sortedPaths.end(); ++it)
		out << createContigName() << '\t' << *it << '\n';
	assert_good(out, opt::out);

	// Report assembly metrics.
	reportAssemblyMetrics(lengths, sortedPaths);
}

/** Assemble the path overlap graph. */
static void