aquas_chipseq pipline SPP error

[fengyun198503]

Hello

could you kindly help me to fix an error I keep getting when running aquas_chipseq pipeline , the error jam getting is as below：
04:55:10.240 Wait: Task 'chipseq.bds.20180405_152211_048/task.callpeak_spp.spp_rep1_pr1.line_70.id_33' finished.
04:55:10.240 Wait: Waiting for task to finish: chipseq.bds.20180405_152211_048/task.callpeak_spp.spp_rep1.line_70.id_31, state: FINISHED
04:55:10.240 Wait: Task 'chipseq.bds.20180405_152211_048/task.callpeak_spp.spp_rep1.line_70.id_31' finished.
04:55:10.240 Waiting for all 'parrallel' to finish.
04:55:10.240 Waiting for parallel 'chipseq.bds.20180405_152211_048_parallel_22' to finish. RunState: FINISHED
04:55:10.240 Waiting for parallel 'chipseq.bds.20180405_152211_048_parallel_23' to finish. RunState: FINISHED
Fatal error: /data/Workspace/Haichao/tool/chipseq_pipeline-master/chipseq.bds, line 1354, pos 2. Task/s failed.
chipseq.bds, line 91 : main()
chipseq.bds, line 94 : void main() { // chipseq pipeline starts here
chipseq.bds, line 103 : if ( !pe_xcor_only ) {
chipseq.bds, line 105 : call_peaks() // call peaks in parallel (MACS2,SPP)
chipseq.bds, line 929 : void call_peaks() {
chipseq.bds, line 1354 : wait

Creating checkpoint file: Config or command line option disabled checkpoint file creation, nothing done.
04:55:10.298 Writing report file 'chipseq.bds.20180405_152211_048.report.html'
04:55:10.316 Program 'chipseq.bds.20180405_152211_048' finished, exit value: 1, tasks executed: 31, tasks failed: 1, tasks failed names: spp rep1-pr1.
04:55:10.317 Finished. Exit code: 1
04:55:10.321 ExecutionerLocal 'Local[24]': Killed
bds -c /data/Workspace/Haichao/tool/chipseq_pipeline-master/bds.config -v /data/Workspace/Haichao/tool/chipseq_pipeline-master/chipseq.bds -out_dir ./SCI_final_notrim5_out -pe_no_trim_fastq -pe -type TF -species mm10 -fastq1_1:1 /data/NGS.Labdata/HiSeq_RUN/2018_03_13/trim/mouse-primary-SCI-ChIPseq-STAT3-Day7-rep1.paired.read1.fastq -fastq1_2:1 /data/NGS.Labdata/HiSeq_RUN/2018_03_13/trim/mouse-primary-SCI-ChIPseq-STAT3-Day7-rep1.paired.read2.fastq -ctl_fastq1_1:1 /data/NGS.Labdata/HiSeq_RUN/2018_03_13/trim/stat3-input.paired.read1.fastq -ctl_fastq1_2:1 /data/NGS.Labdata/HiSeq_RUN/2018_03_13/trim/stat3-input.paired.read2.fastq

Thank you!

[leepc12]

Please post a full log.

[fengyun198503]

script: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/bin/../lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/R: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/../../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
gzip: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
gzip: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
Loading required package: caTools
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/Rscript: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
uname: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/R: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/../../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/Rscript: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
uname: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/R: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/../../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
rm: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
rm: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/Rscript: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
uname: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/R: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/../../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/Rscript: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sh: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
uname: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/bin/sed: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)
/home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/R: /home1/04324/hwei1/miniconda3/envs/aquas_chipseq/lib/R/bin/exec/../../../libuuid.so.1: no version information available (required by /opt/apps/xalt/1.7.7/lib64/libxalt_init.so)

[leepc12]

What is your OS?

[fengyun198503]

RedHat 7.1 (x86_64)

[leepc12]

Can you remove all conflicting dependencies (like xalt?) from your bash start up script and try again?
~/.bashrc or ~/.bash_profile

[leepc12]

closing this due to long inactivity