bigdatagenomics/adam issues and pull requests

#2412 - Update GenomicDataset.scala

Pull Request - State: closed - Opened by hannahbarfield 2 months ago - 1 comment

#2411 - Add documentation for ClassTag in saveAvro method

Issue - State: closed - Opened by hannahbarfield 3 months ago - 1 comment

#2410 - Update Spark dependency version to 3.5.3

Pull Request - State: closed - Opened by heuermh 4 months ago

#2409 - Update bdg-formats dependency version to 1.0.3, avro to 1.11.4

Pull Request - State: closed - Opened by heuermh 4 months ago

#2408 - Bump org.apache.avro:avro from 1.11.3 to 1.11.4

Pull Request - State: closed - Opened by dependabot[bot] 4 months ago - 2 comments
Labels: dependencies

#2407 - Fix deploy snapshot Github Action failures

Issue - State: open - Opened by heuermh 6 months ago

#2406 - Update guava dependency version to 33.3.0-jre

Pull Request - State: closed - Opened by heuermh 6 months ago

#2405 - Update Spark dependency version to 3.5.2

Issue - State: closed - Opened by heuermh 6 months ago

#2404 - Update Spark dependency version to 3.5.2

Pull Request - State: closed - Opened by heuermh 6 months ago - 1 comment

#2403 - [Adam - 2401] Refactoring Error Messages

Pull Request - State: open - Opened by joonkang-git 6 months ago - 3 comments

#2402 - Refactored MDTag.scala for consistency

Pull Request - State: closed - Opened by joonkang-git 6 months ago

#2401 - Refactoring Error Logging Inconsistencies in MdTag.scala

Issue - State: open - Opened by joonkang-git 6 months ago

#2400 - Clean build

Pull Request - State: closed - Opened by sih 11 months ago

#2399 - Update Spark dependency version to 3.5.0

Pull Request - State: closed - Opened by heuermh about 1 year ago

#2398 - Update Spark dependency version to 3.5.x

Issue - State: closed - Opened by heuermh about 1 year ago - 1 comment

#2397 - Remove duplicate release version 1.0.1 section from CHANGES.md

Pull Request - State: closed - Opened by heuermh about 1 year ago

#2396 - Duplicate 1.0.1 entry in CHANGES.md

Issue - State: closed - Opened by heuermh about 1 year ago

#2395 - Update maven-gpg-plugin dependency version to 3.1.0

Pull Request - State: closed - Opened by heuermh about 1 year ago

#2394 - Update bdg-formats dependency version to 1.0.2, bdg-utils to 1.0.1

Pull Request - State: closed - Opened by heuermh about 1 year ago

#2393 - Update spark dependency version to 3.3.4, and other dependency updates

Pull Request - State: closed - Opened by heuermh about 1 year ago

#2392 - Remove dependency on scala json package

Pull Request - State: closed - Opened by heuermh about 1 year ago

#2391 - Bump com.google.guava:guava from 31.1-jre to 32.0.0-jre

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#2390 - Bump org.apache.avro:avro from 1.11.1 to 1.11.3

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#2389 - Update dependency on commons-lang to commons-lang3

Pull Request - State: closed - Opened by heuermh over 1 year ago

#2388 - Bump org.apache.spark:spark-core_2.12 from 3.3.2 to 3.3.3

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#2387 - Parquet/Avro schema mismatch in transformFragments

Issue - State: closed - Opened by heuermh over 1 year ago - 1 comment

#2386 - Bump spark-core_2.12 from 3.3.2 to 3.4.0

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago
Labels: dependencies

#2386 - Bump spark-core_2.12 from 3.3.2 to 3.4.0

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 1 comment
Labels: dependencies

#2385 - Missing Fastq reads

Issue - State: open - Opened by SidWeng almost 2 years ago - 1 comment

#2384 - Update Spark dependency version to 3.3.2

Pull Request - State: closed - Opened by heuermh almost 2 years ago

#2383 - Update Spark dependency version to 3.3.2

Issue - State: closed - Opened by heuermh almost 2 years ago

#2382 - Parameter warnings for scala-maven-plugin

Issue - State: closed - Opened by heuermh almost 2 years ago

#2382 - Parameter warnings for scala-maven-plugin

Issue - State: closed - Opened by heuermh almost 2 years ago

#2381 - Bump htsjdk from 2.19.0 to 3.0.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 5 comments
Labels: dependencies

#2381 - Bump htsjdk from 2.19.0 to 3.0.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 5 comments
Labels: dependencies

#2380 - Update avro dependency version to 1.11.1

Pull Request - State: closed - Opened by heuermh about 2 years ago

#2380 - Update avro dependency version to 1.11.1

Pull Request - State: closed - Opened by heuermh about 2 years ago

#2379 - Update Avro dependency version to 1.11.1

Issue - State: closed - Opened by heuermh about 2 years ago

#2379 - Update Avro dependency version to 1.11.1

Issue - State: closed - Opened by heuermh about 2 years ago

#2379 - Update Avro dependency version to 1.11.1

Issue - State: closed - Opened by heuermh about 2 years ago

#2378 - Update dependency versions

Pull Request - State: closed - Opened by heuermh about 2 years ago

#2377 - Update Spark dependency version to 3.3.1

Issue - State: closed - Opened by heuermh over 2 years ago

#2377 - Update Spark dependency version to 3.3.1

Issue - State: closed - Opened by heuermh over 2 years ago

#2376 - BAM/BED to parquet

Issue - State: closed - Opened by darked89 over 2 years ago - 5 comments

#2376 - BAM/BED to parquet

Issue - State: closed - Opened by darked89 over 2 years ago - 5 comments

#2375 - Update Spark dependency version to 3.3.0

Issue - State: closed - Opened by heuermh over 2 years ago - 1 comment

#2374 - Update python dev version to 1.1a0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2374 - Update python dev version to 1.1a0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2374 - Update python dev version to 1.1a0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2373 - Update bdg-formats dependency version to 1.0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2373 - Update bdg-formats dependency version to 1.0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2372 - Update bdg-utils dependency version to 1.0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2372 - Update bdg-utils dependency version to 1.0

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2371 - Update bdg-formats dependency version to 1.0

Issue - State: closed - Opened by heuermh over 2 years ago

#2371 - Update bdg-formats dependency version to 1.0

Issue - State: closed - Opened by heuermh over 2 years ago

#2371 - Update bdg-formats dependency version to 1.0

Issue - State: closed - Opened by heuermh over 2 years ago

#2370 - Update bdg-utils dependency version to 1.0

Issue - State: closed - Opened by heuermh over 2 years ago

#2370 - Update bdg-utils dependency version to 1.0

Issue - State: closed - Opened by heuermh over 2 years ago

#2370 - Update bdg-utils dependency version to 1.0

Issue - State: closed - Opened by heuermh over 2 years ago

#2369 - [ADAM-2295] Add workaround for BAM files hosted on SRA s3 archive

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2369 - [ADAM-2295] Add workaround for BAM files hosted on SRA s3 archive

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2369 - [ADAM-2295] Add workaround for BAM files hosted on SRA s3 archive

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2369 - [ADAM-2295] Add workaround for BAM files hosted on SRA s3 archive

Pull Request - State: closed - Opened by heuermh over 2 years ago

#2368 - Add count kmers methods to SequenceDataset

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2368 - Add count kmers methods to SequenceDataset

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2368 - Add count kmers methods to SequenceDataset

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2368 - Add count kmers methods to SequenceDataset

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2367 - Add sort and maximum length arguments

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2367 - Add sort and maximum length arguments

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2367 - Add sort and maximum length arguments

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2366 - [ADAM-2362] Account for duplicate kmers on left flank

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2366 - [ADAM-2362] Account for duplicate kmers on left flank

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2366 - [ADAM-2362] Account for duplicate kmers on left flank

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2365 - Add maximum length parameter to countSliceKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2365 - Add maximum length parameter to countSliceKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2365 - Add maximum length parameter to countSliceKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2365 - Add maximum length parameter to countSliceKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2364 - Add references parameter to transformSequences/transformSequences/countKmers etc.

Issue - State: closed - Opened by heuermh almost 3 years ago - 2 comments

#2364 - Add references parameter to transformSequences/transformSequences/countKmers etc.

Issue - State: closed - Opened by heuermh almost 3 years ago - 2 comments

#2363 - Add sort output parameter to countKmers/countSliceKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2363 - Add sort output parameter to countKmers/countSliceKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2362 - Kmers overcounted in Slice countKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2362 - Kmers overcounted in Slice countKmers

Issue - State: closed - Opened by heuermh almost 3 years ago

#2361 - Add single file argument to count kmers

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2361 - Add single file argument to count kmers

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2361 - Add single file argument to count kmers

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2361 - Add single file argument to count kmers

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2360 - Add IUPAC amino acid and nucleotide base alphabet with ambiguity

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2360 - Add IUPAC amino acid and nucleotide base alphabet with ambiguity

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2360 - Add IUPAC amino acid and nucleotide base alphabet with ambiguity

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2359 - Update scala-guice dependency version to 5.0.2, guava to 31.1-jre

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2359 - Update scala-guice dependency version to 5.0.2, guava to 31.1-jre

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2359 - Update scala-guice dependency version to 5.0.2, guava to 31.1-jre

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2358 - Feature strand may be null

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2358 - Feature strand may be null

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2358 - Feature strand may be null

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2358 - Feature strand may be null

Pull Request - State: closed - Opened by heuermh almost 3 years ago

#2357 - Features without strand NPE in printFeatureAttributes

Issue - State: closed - Opened by heuermh almost 3 years ago

#2357 - Features without strand NPE in printFeatureAttributes

Issue - State: closed - Opened by heuermh almost 3 years ago

#2357 - Features without strand NPE in printFeatureAttributes

Issue - State: closed - Opened by heuermh almost 3 years ago

GitHub / bigdatagenomics/adam issues and pull requests