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==== Usage Example ====
==== Usage Example ====
The following example reads in a sam/bam file and writes it out as a sam/bam file. The file format of the input sam/bam is determined by the SamFile class based on reading the type from the file. The file format of the output sam/bam file is determined by the '''SamFile''' class based on the extension of the output file. A ".bam" extension indicates a BAM file. All other extensions indicate SAM files.
The following example reads in a sam/bam file and writes it out as a sam/bam file. The file format of the input sam/bam is determined by the SamFile class based on reading the type from the file. The file format of the output sam/bam file is determined by the '''SamFile''' class based on the extension of the output file. A ".bam" extension indicates a BAM file. All other extensions indicate SAM files.
<pre>
<source lang="cpp">
int main(int argc, char ** argv)
int main(int argc, char ** argv)
{
{
std::cout << "Number of valid records = " << numValidRecords << std::endl;
std::cout << "Number of valid records = " << numValidRecords << std::endl;
}
}
</pre>
</source>
=== Reading Indexed (and Sorted) BAM Files ===
=== Reading Indexed (and Sorted) BAM Files ===
