Segfault encountered in using read.maf to read mutation and Gistic results at the same simultaneously:

>maf=read.maf(fn,gisticAllLesionsFile='all_lesions.conf_99.txt',gisticAmpGenesFile='amp_genes.conf_99.txt',gisticDelGenesFile='del_genes.conf_99.txt')

reading maf..

Mutation_Status not found. Assuming all variants are Somatic and validated.

Excluding 2831 silent variants.

        ID    N

1: Samples  102

2:   3'UTR  337

3: 5'Flank  232

4:   5'UTR  262

5:     RNA  310

6:  Silent 1588

7: lincRNA  102

Processing Gistic files..

 *** caught segfault ***

address 0xf1000013, cause 'memory not mapped'

Traceback:

 1: rbindlist(l, use.names, fill, idcol)

 2: data.table::.rbind.data.table(...)

 3: rbind(deparse.level, ...)

 4: rbind(ampGenes, delGenes)

 5: readGistic(gisticAllLesionsFile = gisticAllLesionsFile, gisticAmpGenesFile = gisticAmpGenesFile,     gisticDelGenesFile = gisticDelGenesFile, isTCGA = isTCGA)

 6: read.maf(fn, gisticAllLesionsFile = "all_lesions.conf_99.txt",     gisticAmpGenesFile = "amp_genes.conf_99.txt", gisticDelGenesFile = "del_genes.conf_99.txt")

The above error occurred when both amp_genes.conf_XX.txt and del_genes.conf_XX.txt are provided simultaneously. If provided only amp_genes.conf_XX.txt or del_genes.conf_XX.txt, it works.

Anyone here encountered the same issue? 

Best regards,

Xiangchun