java.lang.AssertionError: Read 40488, length 923, exceeds the limit of 600 You can map the reads in chunks by reformatting to fasta, then mapping with the setting 'fastareadlen=600'

seqanswers.com | 4 months ago
  1. 0

    BBMap (aligner for DNA/RNAseq) is now open-source and available for download. [Archive] - SEQanswers

    seqanswers.com | 4 months ago
    java.lang.AssertionError: Read 40488, length 923, exceeds the limit of 600 You can map the reads in chunks by reformatting to fasta, then mapping with the setting 'fastareadlen=600'
  2. 0

    BBMap (aligner for DNA/RNAseq) is now open-source and available for download. - Page 7 - SEQanswers

    seqanswers.com | 4 days ago
    java.lang.AssertionError: Read 8202, length 621, exceeds the limit of 600 You can map the reads in chunks by reformatting to fasta, then mapping with the setting 'fastareadlen=600'
  3. 0

    InstructorFeedbackEditPageUiTest failing on live server

    GitHub | 10 months ago | damithc
    java.lang.AssertionError: Expected recipient's team members to be able to see response, but was This is the visibility as seen by the feedback giver. The receiving student can see your response, and your name. Instructors in this course can see your response, the name of the recipient, and your name.
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  5. 0

    fix extractDuplicates & added resource transformers from maven-shade-plu... by kedzie · Pull Request #614 · simpligility/android-maven-plugin · GitHub

    github.com | 1 year ago
    java.lang.AssertionError: [[ERROR] Failed to execute goal com.simpligility.maven.plugins:android-maven-plugin:4.1.2-SNAPSHOT:manifest-merger (manifestMerger) on project tictactoe-app: Execution manifestMerger of goal com.simpligility.maven.plugins:android-maven-plugin:4.1.2-SNAPSHOT:manifest-merger failed: com.android.manifmerger.ManifestMerger2$MergeFailureException: org.xml.sax.SAXNotRecognizedException: Feature ' ' is not recognized. -> [Help 1], [ERROR] , [ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch., [ERROR] Re-run Maven using the -X switch to enable full debug logging., [ERROR] , [ERROR] For more information about the errors and possible solutions, please read the following articles:, [ERROR] [Help 1] , [ERROR] , [ERROR] After correcting the problems, you can resume the build with the command, [ERROR] mvn -rf :tictactoe-app]
  6. 0

    Tempto convention based test: "ignoreExcessRows: true" does not work without "ignoreOrder: true"

    GitHub | 3 months ago | mattsfuller
    java.lang.AssertionError: Expected row count to be <1>, but was <32>; rows=[[columnar_processing, false, false, boolean, Use columnar processing], [columnar_processing_dictionary, false, false, boolean, Use columnar processing with optimizations for dictionaries], [dictionary_aggregation, false, false, boolean, Enable optimization for aggregations on dictionaries], [distributed_index_join, false, false, boolean, Distribute index joins on join keys instead of executing inline], [distributed_join, true, true, boolean, Use a distributed join instead of a broadcast join], [execution_policy, all-at-once, all-at-once, varchar, Policy used for scheduling query tasks], [hash_partition_count, 8, 8, bigint, Number of partitions for distributed joins and aggregations], [initial_splits_per_node, 4, 4, bigint, The number of splits each node will run per task, initially], [optimize_hash_generation, true, true, boolean, Compute hash codes for distribution, joins, and aggregations early in query plan], [parse_decimal_literals_as_double, false, false, boolean, Parse decimal literals as DOUBLE instead of DECIMAL], [plan_with_table_node_partitioning, true, true, boolean, Experimental: Adapt plan to pre-partitioned tables], [prefer_streaming_operators, false, false, boolean, Prefer source table layouts that produce streaming operators], [push_table_write_through_union, true, true, boolean, Parallelize writes when using UNION ALL in queries that write data], [query_max_run_time, 100.00d, 100.00d, varchar, Maximum run time of a query], [re2j_dfa_retries, 5, 5, bigint, Set a number of DFA retries before switching to NFA], [re2j_dfa_states_limit, 2147483647, 2147483647, bigint, Set a DFA states limit], [redistribute_writes, true, true, boolean, Force parallel distributed writes], [regex_library, JONI, JONI, varchar, Select the regex library], [resource_overcommit, false, false, boolean, Use resources which are not guaranteed to be available to the query], [split_concurrency_adjustment_interval, 100.00ms, 100.00ms, varchar, Experimental: Interval between changes to the number of concurrent splits per node], [task_aggregation_concurrency, 1, 1, bigint, Experimental: Default number of local parallel aggregation jobs per worker], [task_hash_build_concurrency, 1, 1, bigint, Experimental: Default number of local parallel hash build jobs per worker], [task_intermediate_aggregation, false, false, boolean, Experimental: add intermediate aggregation jobs per worker], [task_join_concurrency, 1, 1, bigint, Experimental: Default number of local parallel join jobs per worker], [task_share_index_loading, false, false, boolean, Share index join lookups and caching within a task], [task_writer_count, 1, 1, bigint, Default number of local parallel table writer jobs per worker], [hive.force_local_scheduling, false, false, boolean, Only schedule splits on workers colocated with data node], [hive.orc_max_buffer_size, 8MB, 8MB, varchar, ORC: Maximum size of a single read], [hive.orc_max_merge_distance, 1MB, 1MB, varchar, ORC: Maximum size of gap between two reads to merge into a single read], [hive.orc_stream_buffer_size, 8MB, 8MB, varchar, ORC: Size of buffer for streaming reads], [hive.parquet_optimized_reader_enabled, false, false, boolean, Experimental: Parquet: Enable optimized reader], [hive.parquet_predicate_pushdown_enabled, false, false, boolean, Experimental: Parquet: Enable predicate pushdown for Parquet]]

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    Root Cause Analysis

    1. java.lang.AssertionError

      Read 40488, length 923, exceeds the limit of 600 You can map the reads in chunks by reformatting to fasta, then mapping with the setting 'fastareadlen=600'

      at align2.AbstractMapThread.run()
    2. align2
      AbstractMapThread.run
      1. align2.AbstractMapThread.run(AbstractMapThread.java:284)
      1 frame