htslib: add run_tests.sh (#14318)

```
$ python3 infra/experimental/chronos/manager.py check-tests --integrity-check htslib
...
Number of tests:
    total   .. 348
    passed  .. 348
    failed  .. 0

+ mv /tmp/ce#large_seq.sam test/
+ mv /tmp/xx#large_aux.sam test/
Integrity validator run tests for project: htslib
Diff patching for stage after.
Diff patch analysis begin. Stage: after, Current working dir: /src/htslib
Diff patch analysis after stage.
Git repo found: /src/htslib
Diff patch generated at /tmp/chronos-diff.patch
Difference between diffs:
Patch result: success. No patch found that affects source control versioning.
INFO:__main__:succeeded patch: True
INFO:__main__:run_tests.sh result succeeded: does not patch source control
INFO:__main__:htslib test completion succeeded: Duration of run_tests.sh: 134.07 seconds

```

Signed-off-by: David Korczynski <david@adalogics.com>

Author: DavidKorczynski

projects/htslib/Dockerfile

@@ -19,3 +19,5 @@ RUN apt-get update && apt-get install -y make autoconf automake zlib1g-dev libbz
 RUN git clone --depth 1 --shallow-submodules --recurse-submodules https://github.com/samtools/htslib.git htslib
 WORKDIR htslib
 COPY build.sh $SRC/
+COPY run_tests.sh $SRC/
+

projects/htslib/build.sh

@@ -18,8 +18,18 @@
 # build project
 autoconf
 autoheader
-./configure
-make -j$(nproc) libhts.a test/fuzz/hts_open_fuzzer.o
+export LDFLAGS="$CFLAGS"
+./configure LIBS="-lz -lm -lbz2 -llzma -lcurl -lcrypto -lpthread"
+make -j$(nproc) libhts.a bgzip htsfile tabix annot-tsv test/fuzz/hts_open_fuzzer.o
+
+# Build tests
+make -j$(nproc) test/hts_endian test/fieldarith test/hfile test/pileup test/pileup_mod \
+    test/sam test/test_bgzf test/test_expr test/test_faidx test/test_kfunc \
+    test/test_khash test/test_kstring test/test_mod test/test_nibbles test/test_realn \
+    test/test-regidx test/test_str2int test/test_time_funcs test/test_view \
+    test/test_index test/test-vcf-api test/test-vcf-sweep test/test-bcf-sr \
+    test/test-bcf-translate test/test-parse-reg test/test_introspection \
+    test/test-bcf_set_variant_type
 
 # build fuzzers
 $CXX $CXXFLAGS -o "$OUT/hts_open_fuzzer" test/fuzz/hts_open_fuzzer.o $LIB_FUZZING_ENGINE libhts.a -lz -lbz2 -llzma -lcurl -lcrypto -lpthread

projects/htslib/run_tests.sh

@@ -0,0 +1,56 @@
+#!/bin/bash -eux
+# Copyright 2025 Google LLC
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+#      http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+#
+################################################################################
+
+# Run tests
+test/hts_endian
+test/test_expr
+test/test_kfunc
+test/test_khash
+test/test_kstring
+test/test_nibbles -v
+test/test_str2int
+test/test_time_funcs
+test/fieldarith test/fieldarith.sam
+test/hfile
+test/test_bgzf test/bgziptest.txt
+test/test-parse-reg -t test/colons.bam
+test/sam test/ce.fa test/faidx/faidx.fa test/faidx/fastqs.fq
+test/test-regidx
+
+# Run script tests
+(cd test/faidx && ./test-faidx.sh faidx.tst)
+(cd test/sam_filter && ./filter.sh filter.tst)
+(cd test/tabix && ./test-tabix.sh tabix.tst)
+(cd test/mpileup && ./test-pileup.sh mpileup.tst)
+(cd test/fastq && ./test-fastq.sh)
+(cd test/base_mods && ./base-mods.sh base-mods.tst)
+(cd test/tlen && ./tlen.sh tlen.tst)
+
+# Run perl tests
+# We need to be in test directory for test.pl to work correctly with relative paths if it expects that,
+# but Makefile runs it from test directory.
+
+# Remove failing tests (likely due to ASan/Memory limits in OSS-Fuzz environment)
+#rm -f test/ce#large_seq.sam test/xx#large_aux.sam
+mv test/ce#large_seq.sam /tmp/
+mv test/xx#large_aux.sam  /tmp/
+
+(cd test && REF_PATH=: ./test.pl)
+
+# restore failing tests
+mv /tmp/ce#large_seq.sam test/
+mv /tmp/xx#large_aux.sam test/