citiususc / SparkBWA

SparkBWA is a new tool that exploits the capabilities of a Big Data technology as Apache Spark to boost the performance of one of the most widely adopted sequence aligner, the Burrows-Wheeler Aligner (BWA).

citiususc/SparkBWA Issues

mvn.128.no/maven2 unreachable
Closed 3 years ago1
Can't run SparkBWA on Amazon EMR Yarn cluster
Updated 3 years ago1
Missing an output location for shuffle 0
Closed 5 years ago1
[Question - RDD creation step , BWA-MEM step] WIth alignment input size 280GB
Closed 4 years ago
Spark job fails saying methods cannot be called on a stopped SparkContext
Updated 4 years ago
Error while running master as local
Updated 5 years ago
--master local[n] results in an error
Updated 5 years ago1
SparkBWA generates empty sam files
Closed 7 years ago8
Output is empty .sam file!!
Closed 7 years ago1
jni_md.h file is not found
Closed 6 years ago4
BUILD FAILURE: Failed to execute goal org.codehaus.mojo:exec-maven-plugin:1.5.0:exec
Closed 7 years ago2
Build fails due to certificate problems in Maven package
Closed 7 years ago6
If you run it with Spark-submit, will not the BwaJni class and native BWA run?
Updated 7 years ago
ERROR: java.lang.ClassNotFoundException: com.github.sparkbwa.FASTQRecordGrouper
Closed 7 years ago10
Problem when using spark-bwa (not linked to the reducer) ends up with bad header
Closed 7 years ago1
Collective sam file not present in the output directory.
Closed 7 years ago9
Single-end reads crash
Closed 7 years ago4
run with single-end error
Closed 8 years ago6
Wouldn't it be good to add a feature in your program to execute the BWA program directly?
Closed 7 years ago3
ERROR YarnScheduler: Lost executor 5 on Mcnode6: remote Rpc client disassociated
Closed 7 years ago15
ERROR scheduler.LiveListenerBus: Listener EventLoggingListener threw an exception java.lang.reflect.InvocationTargetException
Closed 8 years ago4
Unable to build with Maven
Closed 7 years ago2
Error when using Azure blob storage paths for FASTQ files and SAM output file
Closed 7 years ago1
Index file cannot be located
Closed 7 years ago1
SparkBWA generates empty sam files
Closed 7 years ago17
mvn package compilation failing with certificate error
Closed 7 years ago3
Help needed to run SparkBWA without Hadoop
Closed 7 years ago3
Docker setup
Closed 7 years ago1
about processing SparkBWA warning
Closed 7 years ago7
-bwaArgs option seems not working
Closed 8 years ago1
spark2.0?
Closed 8 years ago1
Any pair of fq files can do to test it
Closed 8 years ago1
The version ?
Closed 8 years ago1
Running with master mode error：File does not exist
Closed 8 years ago1
Build fails on linking libbwa (Mac OS X)
Closed 8 years ago3
Exception in thread “main” org.apache.spark.SparkException: Application application finished with failed status
Closed 8 years ago
exception in thread main org.apache.spark.sparkexception application finished with failed status
Closed 8 years ago
ERROR LiveListenerBus: Listener EventLoggingListener threw an exception
Closed 8 years ago1
Problem running SparkBWA
Closed 8 years ago2
Need advise run to SparkBWA with Big data set of HG
Closed 8 years ago1
yarn-cluster mode actually taking a singl node and core
Closed 8 years ago5
Error SparkBWA
Closed 8 years ago1
Cannot start SparkBWA
Closed 8 years ago29
Error during execution
Closed 8 years ago13
Problem in running MEM with Sparkbwa
Closed 8 years ago6
Closed
Closed 8 years ago