citiususc/SparkBWA

Issues

• mvn.128.no/maven2 unreachable

  #61 opened 3 years ago by iagooteroc
  1

• Can't run SparkBWA on Amazon EMR Yarn cluster

  #55 opened 7 years ago by Maryom
  1

• Missing an output location for shuffle 0

  #53 opened 5 years ago by Shenglai
  1

• [Question - RDD creation step , BWA-MEM step] WIth alignment input size 280GB

  #60 opened 5 years ago by quito418
  0

• Spark job fails saying methods cannot be called on a stopped SparkContext

  #59 opened 5 years ago by dljonescis
  0

• Error while running master as local

  #58 opened 5 years ago by dikshachaudhary
  0

• --master local[n] results in an error

  #57 opened 7 years ago by pdagosto
  1

• SparkBWA generates empty sam files

  #44 opened 7 years ago by salimbakker
  8

• Output is empty .sam file!!

  #51 opened 7 years ago by Rokshan2016
  1

• jni_md.h file is not found

  #54 opened 7 years ago by Maryom
  4

• BUILD FAILURE: Failed to execute goal org.codehaus.mojo:exec-maven-plugin:1.5.0:exec

  #45 opened 8 years ago by noelnamai
  2

• Build fails due to certificate problems in Maven package

  #34 opened 8 years ago by avapirev
  6

• If you run it with Spark-submit, will not the BwaJni class and native BWA run?

  #52 opened 7 years ago by jjyem
  0

• ERROR: java.lang.ClassNotFoundException: com.github.sparkbwa.FASTQRecordGrouper

  #49 opened 7 years ago by avapirev
  10

• Problem when using spark-bwa (not linked to the reducer) ends up with bad header

  #50 opened 7 years ago by ogirardot
  1

• Collective sam file not present in the output directory.

  #38 opened 7 years ago by tushu1232
  9

• Single-end reads crash

  #48 opened 7 years ago by avapirev
  4

• run with single-end error

  #7 opened 8 years ago by xubo245
  6

• Wouldn't it be good to add a feature in your program to execute the BWA program directly?

  #46 opened 8 years ago by HamidMushtaq
  3

• ERROR YarnScheduler: Lost executor 5 on Mcnode6: remote Rpc client disassociated

  #35 opened 8 years ago by xubo245
  15

• ERROR scheduler.LiveListenerBus: Listener EventLoggingListener threw an exception java.lang.reflect.InvocationTargetException

  #20 opened 8 years ago by luobailian
  4

• Unable to build with Maven

  #41 opened 8 years ago by luederm
  2

• Error when using Azure blob storage paths for FASTQ files and SAM output file

  #43 opened 8 years ago
  1

• Index file cannot be located

  #42 opened 8 years ago by avapirev
  1

• SparkBWA generates empty sam files

  #22 opened 8 years ago by Asmaa-Ali
  17

• mvn package compilation failing with certificate error

  #40 opened 8 years ago by tushu1232
  3

• Help needed to run SparkBWA without Hadoop

  #36 opened 8 years ago by avapirev
  3

• Docker setup

  #25 opened 8 years ago by mgijsbertihodenpijl
  1

• about processing SparkBWA warning

  #32 opened 8 years ago by light940929
  7

• -bwaArgs option seems not working

  #27 opened 8 years ago by jmoa
  1

• spark2.0?

  #28 opened 8 years ago by cariaso
  1

• Any pair of fq files can do to test it

  #18 opened 8 years ago by luobailian
  1

• The version ?

  #17 opened 8 years ago by wangzhenkeep
  1

• Running with master mode error：File does not exist

  #11 opened 8 years ago by xubo245
  1

• Build fails on linking libbwa (Mac OS X)

  #23 opened 8 years ago by mgijsbertihodenpijl
  3

• Exception in thread “main” org.apache.spark.SparkException: Application application finished with failed status

  #21 opened 8 years ago by Asmaa-Ali
  0

• exception in thread main org.apache.spark.sparkexception application finished with failed status

  #19 opened 8 years ago by Asmaa-Ali
  0

• ERROR LiveListenerBus: Listener EventLoggingListener threw an exception

  #16 opened 8 years ago by wangzhenkeep
  1

• Problem running SparkBWA

  #14 opened 8 years ago by Asmaa-Ali
  2

• Need advise run to SparkBWA with Big data set of HG

  #15 opened 8 years ago by Nav15
  1

• yarn-cluster mode actually taking a singl node and core

  #13 opened 8 years ago by Nav15
  5

• Error SparkBWA

  #8 opened 9 years ago by Nav15
  1

• Cannot start SparkBWA

  #6 opened 9 years ago by xubo245
  29

• Error during execution

  #5 opened 9 years ago by Nav15
  13

• Problem in running MEM with Sparkbwa

  #4 opened 9 years ago by neozhang307
  6

• Closed

  #2 opened 9 years ago by Nav15
  0