7df6e18265341f87a69fba808aa1f92f8ebca841
markd
  Wed Apr 15 13:39:42 2026 -0700
move copy of htslib

diff --git src/htslib/test/fieldarith.c src/htslib/test/fieldarith.c
deleted file mode 100644
index 6d871b7372b..00000000000
--- src/htslib/test/fieldarith.c
+++ /dev/null
@@ -1,72 +0,0 @@
-/*  test/fieldarith.c -- CIGAR field arithmetic test suite.
-
-    Copyright (C) 2013 Genome Research Ltd.
-
-    Author: John Marshall <jm18@sanger.ac.uk>
-
-Permission is hereby granted, free of charge, to any person obtaining a copy
-of this software and associated documentation files (the "Software"), to deal
-in the Software without restriction, including without limitation the rights
-to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-copies of the Software, and to permit persons to whom the Software is
-furnished to do so, subject to the following conditions:
-
-The above copyright notice and this permission notice shall be included in
-all copies or substantial portions of the Software.
-
-THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
-THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
-FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
-DEALINGS IN THE SOFTWARE.  */
-
-#include <stdio.h>
-
-#include "htslib/sam.h"
-
-int ntests = 0;
-int nfailures = 0;
-
-void check(const bam1_t *aln, const char *testname, const char *tag, int value)
-{
-    int32_t refvalue;
-    uint8_t *aux = bam_aux_get(aln, tag);
-    if (!aux) return;
-    ntests++;
-    refvalue = bam_aux2i(aux);
-    if (value != refvalue) {
-        fprintf(stderr, "%s FAIL for %s: computed %d != %d expected\n",
-                testname, bam_get_qname(aln), value, refvalue);
-        nfailures++;
-    }
-}
-
-int main(int argc, char **argv)
-{
-    bam_hdr_t *header;
-    bam1_t *aln = bam_init1();
-    int i;
-
-    for (i = 1; i < argc; i++) {
-        samFile *in = sam_open(argv[i], "r");
-        if (in == NULL) { perror(argv[1]); return 1; }
-
-        header = sam_hdr_read(in);
-        while (sam_read1(in, header, aln) >= 0) {
-            check(aln, "cigar2qlen", "XQ",
-                  bam_cigar2qlen(aln->core.n_cigar, bam_get_cigar(aln)));
-            check(aln, "cigar2rlen", "XR",
-                  bam_cigar2rlen(aln->core.n_cigar, bam_get_cigar(aln)));
-            check(aln, "endpos", "XE", bam_endpos(aln));
-        }
-
-        bam_hdr_destroy(header);
-        sam_close(in);
-    }
-
-    bam_destroy1(aln);
-
-    return (nfailures > 0);
-}