1. Forum
  2. Usenet
  3. LINUX.DEBIAN.BUGS.RC

  • Bug#1103009: genomicsdb: FTBFS in testing/arm64: tests failed (7/9)

    From Lucas Nussbaum@21:1/5 to All on Sun Apr 13 18:50:03 2025
    [continued from previous message]

    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.228 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.228 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.228 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.228 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.228 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.229 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.229 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    0.007 s: Try query with contig intervals instead of tiledb column intervals 0.023 s: api query_variant_calls with protobuf
    13:46:22.234 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.234 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.235 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.235 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.235 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.235 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.235 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.243 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.243 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.243 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.244 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.244 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.244 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.244 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.251 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.251 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.251 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.252 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.252 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.252 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.252 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    0.007 s: Try query with a filter
    0.024 s: api query_variant_calls with protobuf
    13:46:22.258 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.258 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.258 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.259 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.259 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.259 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.259 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.267 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.267 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.267 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.268 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.268 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.268 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.268 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.275 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.275 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.276 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.276 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.276 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.276 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.276 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    0.007 s: Try query with a filter and workspace with GT ploidy
    0.024 s: api query_variant_calls with protobuf
    13:46:22.282 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.282 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.282 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.283 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.283 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.283 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.283 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.290 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.290 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.291 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.291 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.291 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.292 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.292 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.299 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.299 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.300 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.301 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.301 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.301 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.301 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    0.008 s: Try query with a filter and a small segment size to force TileDB buffers overflow
    0.025 s: api query_variant_calls with protobuf
    13:46:22.307 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.307 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.307 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.308 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.308 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.308 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.308 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.316 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.316 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.317 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.317 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.317 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.317 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.317 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG01958
    row=1 position=12144
    genomic_interval=1:12145,12277
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0
    sample=HG00141
    row=0 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1
    sample=HG01958
    row=1 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[T, <NON_REF>] GT:1/1 DP:120
    sample=HG01530
    row=2 position=17384
    genomic_interval=1:17385,17385
    genomic_fields
    REF:G ALT:[A, <NON_REF>] GT:0/1 DP:76
    13:46:22.325 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.325 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.325 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.326 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.326 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.326 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.326 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    0.007 s: Try query with POS and ROW with no match
    0.025 s: api query_variant_calls with protobuf
    13:46:22.332 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].
    begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn
    13:46:22.332 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.333 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.333 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name
    13:46:22.333 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead
    13:46:22.333 DEBUG NativeGenomicsDB - pid=7318 tid=7318 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets):
    missing field sample_name
    13:46:22.333 WARN NativeGenomicsDB - pid=7318 tid=7318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON
    file instead
    ----------------
    Interval:[0,1000000000]

    sample=HG00141
    row=0 position=12140
    genomic_interval=1:12141,12295
    genomic_fields
    REF:C ALT:[<NON_REF>] GT:0/0

    [continued in next message]

    --- SoupGate-Win32 v1.05
    * Origin: fsxNet Usenet Gateway (21:1/5)