Segmentation Fault 11, cuffdiff 2.2.1

[adhac]

I used homebrew to download cufflinks 2.2.1 and the related packages to replicate the Cole-Trapnell paper from 2012 and have run into an issue on step 5. I was using boost 1.58 but then saw the warning that there is an issue with boost 1.56 and above so I uninstalled it and tried the boost155 package but I still keep getting segmentation fault 11. I am running this on my Mac OSX, 8gb of RAM, with 14.08 gb of disk space available. Any help would be much appreciated! I am very new to all of this.

cuffdiff -o diff_out -b /usr/local/Cellar/my_rnaseq_exp/Drosophila_melanogaster/Ensembl/BDGP5.25/Sequence/Bowtie2Index/genome.fa -p 8 -L C1,C2 -u /usr/local/Cellar/my_rnaseq_exp/merged_asm/merged.gtf \./C1_R1_thout/accepted_hits.bam,./C1_R2_thout/accepted_hits.bam,./C1_R3_thout/accepted_hits.bam \./C2_R1_thout/accepted_hits2.bam,./C2_R2_thout/accepted_hits.bam,./C2_R3_thout/accepted_hits.bam

[ghazal]

I was also facing the exact same problem of segmentation fault 11 with cufflinks 2.2.1 and struggled hard to fix it. I am also a mac user and installed it from brew. At last, I found Mac OS X and its higher versions does not include X11(Xquartz). Installation of this tool suddenly fixed my problem. Now, Cufflink is working perfectly.

[ghazal]

This error can also be due to insufficient memory.