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#14 92.15 [[1;33mWARNING[m] Javadoc Warnings
#14 92.15 [[1;33mWARNING[m] /bio-formats-build/ome-metakit/src/main/java/ome/metakit/Column.java:48: warning: no @param for definition
#14 92.15 [[1;33mWARNING[m] public Column(String definition) {
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#14 92.16 [[1;33mWARNING[m] public static String readPString(RandomAccessInputStream stream)
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#14 92.68 Downloaded from central: https://repo.maven.apache.org/maven2/org/eclipse/aether/aether-util/0.9.0.M2/aether-util-0.9.0.M2.jar (134 kB at 1.8 MB/s)
#14 92.72 [[1;34mINFO[m]
#14 92.72 [[1;34mINFO[m] [1m--- [0;32mbuildnumber-maven-plugin:1.4:create[m [1m(default)[m @ [36mpom-bio-formats[0;1m ---[m
#14 92.79 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 92.79 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats
#14 92.80 [[1;34mINFO[m] Storing buildNumber: 1a677f00f2134c2945e33b28c6c58f87c7d3f4bf at timestamp: 1754698189087
#14 92.81 [[1;33mWARNING[m] Cannot get the branch information from the git repository:
#14 92.81 Detecting the current branch failed: fatal: ref HEAD is not a symbolic ref
#14 92.81
#14 92.81 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 92.81 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats
#14 92.81 [[1;34mINFO[m] Storing buildScmBranch: UNKNOWN
#14 92.81 [[1;34mINFO[m]
#14 92.81 [[1;34mINFO[m] [1m>>> [0;32mmaven-source-plugin:3.0.1:jar[m [1m(default)[0;1m > [0;1mgenerate-sources[m @ [36mpom-bio-formats[0;1m >>>[m
#14 92.81 [[1;34mINFO[m]
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#14 92.81 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 92.81 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats
#14 92.82 [[1;34mINFO[m] Storing buildNumber: 1a677f00f2134c2945e33b28c6c58f87c7d3f4bf at timestamp: 1754698189115
#14 92.82 [[1;33mWARNING[m] Cannot get the branch information from the git repository:
#14 92.82 Detecting the current branch failed: fatal: ref HEAD is not a symbolic ref
#14 92.82
#14 92.82 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 92.82 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats
#14 92.82 [[1;34mINFO[m] Storing buildScmBranch: UNKNOWN
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#14 92.90 [[1;34mINFO[m] Installing /bio-formats-build/bioformats/pom.xml to /home/build/.m2/repository/ome/pom-bio-formats/8.4.0-SNAPSHOT/pom-bio-formats-8.4.0-SNAPSHOT.pom
#14 92.90 [[1;34mINFO[m]
#14 92.90 [[1;34mINFO[m] [1m---------------------------< [0;36mome:turbojpeg[0;1m >----------------------------[m
#14 92.90 [[1;34mINFO[m] [1mBuilding libjpeg-turbo Java bindings 8.4.0-SNAPSHOT [13/24][m
#14 92.90 [[1;34mINFO[m] [1m--------------------------------[ jar ]---------------------------------[m
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#14 92.92 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/forks/turbojpeg' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 92.92 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/forks/turbojpeg
#14 92.92 [[1;34mINFO[m] Storing buildNumber: 1a677f00f2134c2945e33b28c6c58f87c7d3f4bf at timestamp: 1754698189222
#14 92.93 [[1;33mWARNING[m] Cannot get the branch information from the git repository:
#14 92.93 Detecting the current branch failed: fatal: ref HEAD is not a symbolic ref
#14 92.93
#14 92.93 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/forks/turbojpeg' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 92.93 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/forks/turbojpeg
#14 92.93 [[1;34mINFO[m] Storing buildScmBranch: UNKNOWN
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#14 92.96 [[1;34mINFO[m] Using 'UTF-8' encoding to copy filtered resources.
#14 92.96 [[1;34mINFO[m] Copying 0 resource
#14 92.96 [[1;34mINFO[m] Copying 7 resources to META-INF/lib
#14 92.97 [[1;34mINFO[m] Copying 0 resource
#14 92.97 [[1;34mINFO[m] Copying 0 resource
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#14 92.97 [[1;34mINFO[m] [1m--- [0;32mmaven-compiler-plugin:3.14.0:compile[m [1m(default-compile)[m @ [36mturbojpeg[0;1m ---[m
#14 93.04 [[1;34mINFO[m] Recompiling the module because of [1mchanged source code[m.
#14 93.04 [[1;34mINFO[m] Compiling 10 source files with javac [debug release 8] to target/classes
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#14 93.12 [[1;34mINFO[m] [1m--- [0;32mmaven-resources-plugin:3.1.0:testResources[m [1m(default-testResources)[m @ [36mturbojpeg[0;1m ---[m
#14 93.12 [[1;34mINFO[m] Using 'UTF-8' encoding to copy filtered resources.
#14 93.12 [[1;34mINFO[m] skip non existing resourceDirectory /bio-formats-build/bioformats/components/forks/turbojpeg/test
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#14 93.25 [[1;34mINFO[m] Building jar: /bio-formats-build/bioformats/components/forks/turbojpeg/target/turbojpeg-8.4.0-SNAPSHOT.jar
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#14 93.31 [[1;34mINFO[m] [1m>>> [0;32mmaven-source-plugin:3.0.1:jar[m [1m(default)[0;1m > [0;1mgenerate-sources[m @ [36mturbojpeg[0;1m >>>[m
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#14 93.31 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/forks/turbojpeg' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 93.31 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/forks/turbojpeg
#14 93.32 [[1;34mINFO[m] Storing buildNumber: 1a677f00f2134c2945e33b28c6c58f87c7d3f4bf at timestamp: 1754698189616
#14 93.32 [[1;33mWARNING[m] Cannot get the branch information from the git repository:
#14 93.32 Detecting the current branch failed: fatal: ref HEAD is not a symbolic ref
#14 93.32
#14 93.32 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/forks/turbojpeg' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 93.32 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/forks/turbojpeg
#14 93.32 [[1;34mINFO[m] Storing buildScmBranch: UNKNOWN
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#14 93.35 [[1;34mINFO[m] Building jar: /bio-formats-build/bioformats/components/forks/turbojpeg/target/turbojpeg-8.4.0-SNAPSHOT-sources.jar
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#14 93.41 [[1;34mINFO[m] Skipping packaging of the test-jar
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#14 93.41 [[1;34mINFO[m] Installing /bio-formats-build/bioformats/components/forks/turbojpeg/target/turbojpeg-8.4.0-SNAPSHOT.jar to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.jar
#14 93.42 [[1;34mINFO[m] Installing /bio-formats-build/bioformats/components/forks/turbojpeg/pom.xml to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.pom
#14 93.42 [[1;34mINFO[m] Installing /bio-formats-build/bioformats/components/forks/turbojpeg/target/turbojpeg-8.4.0-SNAPSHOT-sources.jar to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT-sources.jar
#14 93.42 [[1;34mINFO[m]
#14 93.42 [[1;34mINFO[m] [1m--------------------------< [0;36mome:formats-api[0;1m >---------------------------[m
#14 93.42 [[1;34mINFO[m] [1mBuilding Bio-Formats API 8.4.0-SNAPSHOT [14/24][m
#14 93.42 [[1;34mINFO[m] [1m--------------------------------[ jar ]---------------------------------[m
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#14 93.78 Downloading from central: https://repo.maven.apache.org/maven2/org/yaml/snakeyaml/1.6/snakeyaml-1.6.jar
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#14 93.82 Downloaded from central: https://repo.maven.apache.org/maven2/org/testng/testng/6.8/testng-6.8.jar (813 kB at 9.9 MB/s)
#14 93.83 [[1;34mINFO[m]
#14 93.83 [[1;34mINFO[m] [1m--- [0;32mmaven-clean-plugin:3.1.0:clean[m [1m(default-clean)[m @ [36mformats-api[0;1m ---[m
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#14 93.83 [[1;34mINFO[m]
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#14 93.83 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/formats-api' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 93.83 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/formats-api
#14 93.83 [[1;34mINFO[m] Storing buildNumber: 1a677f00f2134c2945e33b28c6c58f87c7d3f4bf at timestamp: 1754698190131
#14 93.83 [[1;33mWARNING[m] Cannot get the branch information from the git repository:
#14 93.84 Detecting the current branch failed: fatal: ref HEAD is not a symbolic ref
#14 93.84
#14 93.84 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/formats-api' && 'git' 'rev-parse' '--verify' 'HEAD'
#14 93.84 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/formats-api
#14 93.84 [[1;34mINFO[m] Storing buildScmBranch: UNKNOWN
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#14 93.84 [[1;34mINFO[m] Using 'UTF-8' encoding to copy filtered resources.
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#14 93.84 [[1;34mINFO[m] Copying 0 resource
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#14 93.85 [[1;34mINFO[m] Compiling 54 source files with javac [debug release 8] to target/classes
#14 94.24 [[1;34mINFO[m] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatTools.java: Some input files use or override a deprecated API.
#14 94.25 [[1;34mINFO[m] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatTools.java: Recompile with -Xlint:deprecation for details.
#14 94.25 [[1;34mINFO[m] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java: Some input files use unchecked or unsafe operations.
#14 94.25 [[1;34mINFO[m] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java: Recompile with -Xlint:unchecked for details.
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#14 94.25 [[1;34mINFO[m] Recompiling the module because of [1mchanged dependency[m.
#14 94.25 [[1;34mINFO[m] Compiling 6 source files with javac [debug release 8] to target/test-classes
#14 94.38 [[1;34mINFO[m] /bio-formats-build/bioformats/components/formats-api/test/loci/formats/utests/CoreMetadataListTest.java: /bio-formats-build/bioformats/components/formats-api/test/loci/formats/utests/CoreMetadataListTest.java uses unchecked or unsafe operations.
#14 94.38 [[1;34mINFO[m] /bio-formats-build/bioformats/components/formats-api/test/loci/formats/utests/CoreMetadataListTest.java: Recompile with -Xlint:unchecked for details.
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#14 94.45 [[1;34mINFO[m]
#14 94.45 [[1;34mINFO[m] -------------------------------------------------------
#14 94.45 [[1;34mINFO[m] T E S T S
#14 94.45 [[1;34mINFO[m] -------------------------------------------------------
#14 94.67 [[1;34mINFO[m] Running [1mTestSuite[m
#14 94.81 SLF4J: No SLF4J providers were found.
#14 94.81 SLF4J: Defaulting to no-operation (NOP) logger implementation
#14 94.81 SLF4J: See https://www.slf4j.org/codes.html#noProviders for further details.
#14 95.19 [[1;34mINFO[m] [1;32mTests run: [0;1;32m224[m, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.511 s - in [1mTestSuite[m
#14 95.51 [[1;34mINFO[m]
#14 95.51 [[1;34mINFO[m] Results:
#14 95.51 [[1;34mINFO[m]
#14 95.51 [[1;34mINFO[m] [1;32mTests run: 224, Failures: 0, Errors: 0, Skipped: 0[m
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#14 181.6 Downloading from central: https://repo.maven.apache.org/maven2/javax/xml/bind/jaxb-api/2.3.0/jaxb-api-2.3.0.jar
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#14 181.7 Progress (3): 0.9/1.4 MB | 221 kB | 126 kB
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#14 181.7 Downloaded from central: https://repo.maven.apache.org/maven2/org/yaml/snakeyaml/2.0/snakeyaml-2.0.jar (335 kB at 1.5 MB/s)
#14 181.7 Downloading from scijava: https://maven.scijava.org/content/groups/public/cisd/jhdf5/19.04.1/jhdf5-19.04.1.jar
#14 181.7 Downloading from scijava: https://maven.scijava.org/content/groups/public/ome/jxrlib-all/0.2.4/jxrlib-all-0.2.4.jar
#14 181.7 Downloading from scijava: https://maven.scijava.org/content/groups/public/cisd/base/18.09.0/base-18.09.0.jar
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Downloaded from scijava: https://maven.scijava.org/content/groups/public/cisd/base/18.09.0/base-18.09.0.jar (213 kB at 2.5 kB/s)
#14 268.2 Progress (2): 2.0/8.5 MB | 508 kB
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[[1;33mWARNING[m] Could not validate integrity of download from https://maven.scijava.org/content/groups/public/ome/jxrlib-all/0.2.4/jxrlib-all-0.2.4.jar: Checksum validation failed, no checksums available
#14 356.6
[WARNING] Checksum validation failed, no checksums available from scijava for https://maven.scijava.org/content/groups/public/ome/jxrlib-all/0.2.4/jxrlib-all-0.2.4.jar
#14 356.6 Downloaded from scijava: https://maven.scijava.org/content/groups/public/ome/jxrlib-all/0.2.4/jxrlib-all-0.2.4.jar (508 kB at 2.9 kB/s)
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Downloading from ome: https://artifacts.openmicroscopy.org/artifactory/maven/cisd/jhdf5/19.04.1/jhdf5-19.04.1.jar
#14 537.5 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m
#14 537.5 [[1;34mINFO[m] [1mReactor Summary:[m
#14 537.5 [[1;34mINFO[m]
#14 537.5 [[1;34mINFO[m] OME Common Java 6.1.1-SNAPSHOT ..................... [1;32mSUCCESS[m [ 33.158 s]
#14 537.5 [[1;34mINFO[m] OME Model 6.5.1-SNAPSHOT ........................... [1;32mSUCCESS[m [ 0.008 s]
#14 537.5 [[1;34mINFO[m] Metadata model specification 6.5.1-SNAPSHOT ........ [1;32mSUCCESS[m [ 6.458 s]
#14 537.5 [[1;34mINFO[m] OME XML library 6.5.1-SNAPSHOT ..................... [1;32mSUCCESS[m [ 19.084 s]
#14 537.5 [[1;34mINFO[m] OME POI 5.3.11-SNAPSHOT ............................ [1;32mSUCCESS[m [ 7.840 s]
#14 537.5 [[1;34mINFO[m] MDB Tools (Java port) 5.3.5-SNAPSHOT ............... [1;32mSUCCESS[m [ 2.311 s]
#14 537.5 [[1;34mINFO[m] OME JAI 0.1.6-SNAPSHOT ............................. [1;32mSUCCESS[m [ 6.653 s]
#14 537.5 [[1;34mINFO[m] OME Codecs 1.1.2-SNAPSHOT .......................... [1;32mSUCCESS[m [ 5.958 s]
#14 537.5 [[1;34mINFO[m] OME Stubs 6.0.4-SNAPSHOT ........................... [1;32mSUCCESS[m [ 0.007 s]
#14 537.5 [[1;34mINFO[m] MIPAV stubs 6.0.4-SNAPSHOT ......................... [1;32mSUCCESS[m [ 1.831 s]
#14 537.5 [[1;34mINFO[m] Metakit 5.3.10-SNAPSHOT ............................ [1;32mSUCCESS[m [ 2.842 s]
#14 537.5 [[1;34mINFO[m] Bio-Formats projects 8.4.0-SNAPSHOT ................ [1;32mSUCCESS[m [ 0.686 s]
#14 537.5 [[1;34mINFO[m] libjpeg-turbo Java bindings 8.4.0-SNAPSHOT ......... [1;32mSUCCESS[m [ 0.520 s]
#14 537.5 [[1;34mINFO[m] Bio-Formats API 8.4.0-SNAPSHOT ..................... [1;32mSUCCESS[m [ 2.199 s]
#14 537.5 [[1;34mINFO[m] BSD Bio-Formats readers and writers 8.4.0-SNAPSHOT . [1;31mFAILURE[m [07:21 min]
#14 537.5 [[1;34mINFO[m] Bio-Formats library 8.4.0-SNAPSHOT ................. [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Bio-Formats Plugins for ImageJ 8.4.0-SNAPSHOT ...... [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Bio-Formats command line tools 8.4.0-SNAPSHOT ...... [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] bioformats_package bundle 8.4.0-SNAPSHOT ........... [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Bio-Formats testing framework 8.4.0-SNAPSHOT ....... [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Bio-Formats examples 8.4.0-SNAPSHOT ................ [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Bio-Formats documentation 8.4.0-SNAPSHOT ........... [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Implementation of Bio-Formats readers for the next-generation file formats 0.6.1-SNAPSHOT [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] Bio-Formats top-level build 6.0.0-SNAPSHOT ......... [1;33mSKIPPED[m
#14 537.5 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m
#14 537.5 [[1;34mINFO[m] [1;31mBUILD FAILURE[m
#14 537.5 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m
#14 537.5 [[1;34mINFO[m] Total time: 08:53 min
#14 537.5 [[1;34mINFO[m] Finished at: 2025-08-09T00:17:13Z
#14 537.5 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m
#14 537.5 [[1;31mERROR[m] Failed to execute goal on project [36mformats-bsd[m: [1;31mCould not resolve dependencies for project ome:formats-bsd:jar:8.4.0-SNAPSHOT: Could not transfer artifact cisd:jhdf5:jar:19.04.1 from/to scijava (https://maven.scijava.org/content/groups/public/): GET request of: cisd/jhdf5/19.04.1/jhdf5-19.04.1.jar from scijava failed[m: Premature end of Content-Length delimited message body (expected: 8,467,645; received: 7,989,615) -> [1m[Help 1][m
#14 537.5 [[1;31mERROR[m]
#14 537.5 [[1;31mERROR[m] To see the full stack trace of the errors, re-run Maven with the [1m-e[m switch.
#14 537.5 [[1;31mERROR[m] Re-run Maven using the [1m-X[m switch to enable full debug logging.
#14 537.5 [[1;31mERROR[m]
#14 537.5 [[1;31mERROR[m] For more information about the errors and possible solutions, please read the following articles:
#14 537.5 [[1;31mERROR[m] [1m[Help 1][m http://cwiki.apache.org/confluence/display/MAVEN/DependencyResolutionException
#14 537.5 [[1;31mERROR[m]
#14 537.5 [[1;31mERROR[m] After correcting the problems, you can resume the build with the command
#14 537.5 [[1;31mERROR[m] [1mmvn <args> -rf :formats-bsd[m
#14 ERROR: process "/bin/sh -c mvn clean install -DskipSphinxTests" did not complete successfully: exit code: 1
------
> [10/13] RUN mvn clean install -DskipSphinxTests:
537.5 [[1;31mERROR[m] Failed to execute goal on project [36mformats-bsd[m: [1;31mCould not resolve dependencies for project ome:formats-bsd:jar:8.4.0-SNAPSHOT: Could not transfer artifact cisd:jhdf5:jar:19.04.1 from/to scijava (https://maven.scijava.org/content/groups/public/): GET request of: cisd/jhdf5/19.04.1/jhdf5-19.04.1.jar from scijava failed[m: Premature end of Content-Length delimited message body (expected: 8,467,645; received: 7,989,615) -> [1m[Help 1][m
537.5 [[1;31mERROR[m]
537.5 [[1;31mERROR[m] To see the full stack trace of the errors, re-run Maven with the [1m-e[m switch.
537.5 [[1;31mERROR[m] Re-run Maven using the [1m-X[m switch to enable full debug logging.
537.5 [[1;31mERROR[m]
537.5 [[1;31mERROR[m] For more information about the errors and possible solutions, please read the following articles:
537.5 [[1;31mERROR[m] [1m[Help 1][m http://cwiki.apache.org/confluence/display/MAVEN/DependencyResolutionException
537.5 [[1;31mERROR[m]
537.5 [[1;31mERROR[m] After correcting the problems, you can resume the build with the command
537.5 [[1;31mERROR[m] [1mmvn <args> -rf :formats-bsd[m
------
[33m1 warning found (use docker --debug to expand):
[0m - LegacyKeyValueFormat: "ENV key=value" should be used instead of legacy "ENV key value" format (line 30)
Dockerfile:25
--------------------
23 | RUN pip install -r ome-model/requirements.txt
24 |
25 | >>> RUN mvn clean install -DskipSphinxTests
26 |
27 | WORKDIR /bio-formats-build/bioformats
--------------------
ERROR: failed to solve: process "/bin/sh -c mvn clean install -DskipSphinxTests" did not complete successfully: exit code: 1
Build step 'Execute shell' marked build as failure
Finished: FAILURE
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