Closed Dagsbio closed 5 years ago
Dear Dagsbio,
Thank you for using FuSeq.
This issue can be solved simply by removing two files: librt.so.1 and libc.so.6 from folder FuSeq_v1.1.2_linux_x86-64/linux/lib, then it should work.
Best, Nghia
Thanks!, that worked. But now I am encountering an error when running FuSeq.R:
" Error in load(txAnnofile) : bad restore file magic number (file may be corrupted) -- no data loaded In addition: Warning message: file ‘gencode.v29lift37.annotation.gtf’ has magic number '##des' Use of save versions prior to 2 is deprecated Execution halted "
Do you know whats happening?
Thank you.
Hi,
The error is simply that it can not load the RData annotation file.
It is likely that you do not use the "Homo_sapiens.GRCh37.75.txAnno.RData" supplied by FuSeq's website for your analysis. Can you describe more details about how you get the RData annotation file (txAnno), is this from gencode.v29?
Nghia
Hi,
Yes, I am using "gencode.v29lift37.annotation.gtf" file. Although I realised I am running FuSeq.R directly using an absolute path like: ~/Software/FuSeq_v1.1.2_linux_x86-64/R/FuSeq.R so might be that the problem?
Thanks
The command was exactly this: Rscript ~/Software/FuSeq_v1.1.2_linux_x86-64/R/FuSeq.R in=FuSeq_output txfasta=gencode.v29lift37.pc_transcripts.fa sqlite=gencode.v29lift37.annotation.sqlite txanno=gencode.v29lift37.annotation.gtf out=test
Sorry was totally my fault, just rechecked the command which obviously was wrong! It works now.
Thanks.
Hi, I have installed the new version and tried running FuSeq on Ubuntu 18.04 but I am getting this error and can't find a solution for it: relocation error: /home/david/Software/FuSeq_v1.1.2_linux_x86-64/linux/bin/../lib/librt.so.1: symbol __vdso_clock_gettime version GLIBC_PRIVATE not defined in file libc.so.6 with link time reference
Any ideas?
Thank you