Source: sra-sdk Version: 3.0.9+dfsg-7 Severity: normal Tags: patch The autopkgtest of sra-sdk requests data from the Internet using https, however this isn't declared, and there's no requirement to have ca-certificates.
Log: autopkgtest [11:11:57]: test run-unit-test: [----------------------- >>>>>Decompressing test-data archive... dbGaP-0/ dbGaP-0/SRR2042184.fasta meta/ meta/prj_phs710EA_test.ngc meta/SRR6650398_experiment.xml meta/SRR6650398.bam meta/SRR2042184_run.xml meta/SRR2042184_experiment.xml meta/SRR6650398_illumina_run.xml meta/SRR7032226_run.xml meta/SRR7032226_experiment.xml meta/reference.fna meta/SRR6650398_fastq_run.xml public/ public/nannot/ public/wgs/ public/refseq/ public/refseq/NC_000962.3 public/sra/ public/sra/SRR7032226.sra public/sra/SRR6650398.sra public/sra/SRR2042184.sra public/files/ >>>>>Running test-sra... 2025-03-09T15:11:58 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:58 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'trace.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:58 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:58 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'trace.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:58 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:58 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'ftp-trace.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'ftp-trace.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'ftp-trace.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'locate.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'sra-download.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:11:59 test-sra.3.0.9 sys: mbedtls_ssl_get_verify_result for 'sra-download.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) >>>>>Running vdb-config... >>>>>Running cache-mgr... ----------------------------------- 0 cached file(s) 3 complete file(s) 1,800,745 bytes in cached files 1,800,745 bytes used in cached files 0 lock files >>>>>Running srapath... /tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR2042184.sra /tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR6650398.sra /tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR7032226.sra >>>>>Running prefetch... 2025-03-09T15:11:59 prefetch.3.0.9: '/tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR2042184.sra' is a local non-kart file 2025-03-09T15:11:59 prefetch.3.0.9: '/tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR6650398.sra' is a local non-kart file 2025-03-09T15:12:01 prefetch.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:12:01 prefetch.3.0.9 sys: mbedtls_ssl_get_verify_result for 'locate.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) 2025-03-09T15:12:01 prefetch.3.0.9: '/tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR6650398.sra' has 0 unresolved dependencies 2025-03-09T15:12:01 prefetch.3.0.9: '/tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR7032226.sra' is a local non-kart file 2025-03-09T15:12:01 prefetch.3.0.9: '/tmp/autopkgtest.T7fAqv/autopkgtest_tmp/public/sra/SRR7032226.sra' has 0 unresolved dependencies >>>>>Running fastq-dump... 2025-03-09T15:12:02 fastq-dump.3.0.9 sys: encryption failed while validating token within cryptographic module - Verification issue 0x4008 for this certificate: ( cert. version : 3 serial number : 00 issuer name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority subject name : C=US, O=The Go Daddy Group\, Inc., OU=Go Daddy Class 2 Certification Authority issued on : 2004-06-29 17:06:20 expires on : 2034-06-29 17:06:20 signed using : RSA with SHA1 RSA key size : 2048 bits basic constraints : CA=true ) 2025-03-09T15:12:02 fastq-dump.3.0.9 sys: mbedtls_ssl_get_verify_result for 'locate.ncbi.nlm.nih.gov' returned 0x4008 ( !! The certificate is not correctly signed by the trusted CA !! The certificate is signed with an unacceptable hash. ) Failed to call external services. autopkgtest [11:12:03]: test run-unit-test: -----------------------] autopkgtest [11:12:03]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - run-unit-test FAIL non-zero exit status 64 Trivial patch: diff -Nru sra-sdk-3.0.9+dfsg/debian/tests/control sra-sdk-3.0.9+dfsg/debian/tests/control --- sra-sdk-3.0.9+dfsg/debian/tests/control 2024-10-17 22:48:06.000000000 -0400 +++ sra-sdk-3.0.9+dfsg/debian/tests/control 2025-03-09 10:33:36.000000000 -0400 @@ -1,3 +1,3 @@ Tests: run-unit-test -Depends: @ -Restrictions: allow-stderr +Depends: @, ca-certificates +Restrictions: allow-stderr, needs-internet
