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results in a compile error in javac, as Seq<VCFCompoundHeaderLine> and Seq<VCFHeaderLine> do not match
$ mvn compile
...
[ERROR] dishevelled-bio/adam/src/main/java/org/dishevelled/bio/adam/DishevelledAdamContext.java:[181,30] no suitable method found for apply(org.apache.spark.rdd.RDD<org.bdgenomics.formats.avro.Variant>,org.bdgenomics.adam.models.SequenceDictionary,scala.collection.Seq<htsjdk.variant.vcf.VCFCompoundHeaderLine>)
[ERROR] method org.bdgenomics.adam.rdd.variant.VariantRDD.apply(org.apache.spark.sql.Dataset<org.bdgenomics.adam.sql.Variant>,org.bdgenomics.adam.models.SequenceDictionary,scala.collection.Seq<htsjdk.variant.vcf.VCFHeaderLine>) is not applicable
[ERROR] (argument mismatch; org.apache.spark.rdd.RDD<org.bdgenomics.formats.avro.Variant> cannot be converted to org.apache.spark.sql.Dataset<org.bdgenomics.adam.sql.Variant>)
[ERROR] method org.bdgenomics.adam.rdd.variant.VariantRDD.apply(org.apache.spark.rdd.RDD<org.bdgenomics.formats.avro.Variant>,org.bdgenomics.adam.models.SequenceDictionary,scala.collection.Seq<htsjdk.variant.vcf.VCFHeaderLine>) is not applicable
[ERROR] (argument mismatch; scala.collection.Seq<htsjdk.variant.vcf.VCFCompoundHeaderLine> cannot be converted to scala.collection.Seq<htsjdk.variant.vcf.VCFHeaderLine>)
[ERROR] dishevelled-bio/adam/src/main/java/org/dishevelled/bio/adam/DishevelledAdamContext.java:[197,31] no suitable method found for apply(org.apache.spark.rdd.RDD<org.bdgenomics.formats.avro.Genotype>,org.bdgenomics.adam.models.SequenceDictionary,scala.collection.Seq<htsjdk.variant.vcf.VCFCompoundHeaderLine>)
[ERROR] method org.bdgenomics.adam.rdd.variant.GenotypeRDD.apply(org.apache.spark.sql.Dataset<org.bdgenomics.adam.sql.Genotype>,org.bdgenomics.adam.models.SequenceDictionary,scala.collection.Iterable<org.bdgenomics.formats.avro.Sample>,scala.collection.Seq<htsjdk.variant.vcf.VCFHeaderLine>) is not applicable
[ERROR] (actual and formal argument lists differ in length)
[ERROR] method org.bdgenomics.adam.rdd.variant.GenotypeRDD.apply(org.apache.spark.rdd.RDD<org.bdgenomics.formats.avro.Genotype>,org.bdgenomics.adam.models.SequenceDictionary,scala.collection.Iterable<org.bdgenomics.formats.avro.Sample>,scala.collection.Seq<htsjdk.variant.vcf.VCFHeaderLine>) is not applicable
[ERROR] (actual and formal argument lists differ in length)
[ERROR] -> [Help 1]
The text was updated successfully, but these errors were encountered:
heuermh
changed the title
Seq<VCFCompoundHeaderLine> vs. Seq<VCFHeaderLine> in javac
Seq<VCFCompoundHeaderLine> vs. Seq<VCFHeaderLine> with javac
Jul 23, 2017
Attempting to call
results in a compile error in javac, as
Seq<VCFCompoundHeaderLine>
andSeq<VCFHeaderLine>
do not matchThe text was updated successfully, but these errors were encountered: