virtual int get_arguments(int argc, char** argv, char** env) {
int err = 0;
if (argc > (optind)) {
for (int argind = optind; argind < argc; ++argind) {
if ((err = on_argument(argv[argind], argind-optind, argc, argv, env))) {
break;
}
}
}
return err;
}
rc_t foreach_argument( Args * args, KDirectory *dir, bool div_by_spotgrp, bool * empty,
rc_t ( CC * on_argument ) ( const char * path, const char * spot_group, void * data ), void * data )
{
uint32_t count;
rc_t rc = ArgsParamCount( args, &count );
if ( rc != 0 )
{
LOGERR( klogInt, rc, "ArgsParamCount() failed" );
}
else
{
uint32_t idx;
if ( empty != NULL )
{
*empty = ( count == 0 );
}
for ( idx = 0; idx < count && rc == 0; ++idx )
{
const char *param = NULL;
rc = ArgsParamValue( args, idx, ¶m );
if ( rc != 0 )
{
LOGERR( klogInt, rc, "ArgsParamvalue() failed" );
}
else
{
char * path = NULL;
char * spot_group = NULL;
rc = split_argument_into_path_and_readgroup( param, &path, &spot_group );
if ( rc == 0 && path != NULL )
{
/* in case there is no spotgroup-override from the commandline AND
the option to divide by spot-group is set, let spot_group point
to an empty string ---> divide by original spot-group! */
if ( spot_group == NULL && div_by_spotgrp )
{
spot_group = calloc( 1, 1 );
}
#if TOOLS_USE_SRAPATH != 0
if ( !is_this_a_filesystem_path( path ) )
{
rc = resolve_accession( dir, &path );
}
#endif
if ( rc == 0 )
{
rc = on_argument( path, spot_group, data );
}
free( path );
if ( spot_group != NULL )
free( spot_group );
}
}
}
}
return rc;
}
