henryjuho
commented
5 months ago I just hit this same issue, for me it was resolved by downgrading the fraser version in R with:
devtools::install_github('c-mertes/FRASER', ref="1.99.3", dependencies=TRUE)
AtaJadidAhari
Hi, thanks for creating this tool.
i have the following issue when running the drop demo. thanks for helping.
Cario
Load packages Loading required package: rtracklayer Error in if (strandSpecific(fds) == 0) { : the condition has length > 1 Execution halted [Mon May 13 10:31:15 2024] Error in rule AberrantSplicing_pipeline_Counting_01_1_countRNA_splitReads_samplewise_R: jobid: 56 input: /home/epi2mewsl/bin/drop_demo/Output/processed_data/aberrant_splicing/datasets/cache/raw-local-fraser/fds.done, Scripts/AberrantSplicing/pipeline/Counting/01_1_countRNA_splitReads_samplewise.R output: /home/epi2mewsl/bin/drop_demo/Output/processed_data/aberrant_splicing/datasets/cache/raw-local-fraser/sample_tmp/splitCounts/sample_HG00150.done log: /home/epi2mewsl/bin/drop_demo/.drop/tmp/AS/fraser/splitReads/HG00150.Rds (check log file(s) for error details)
RuleException: CalledProcessError in file /tmp/tmpo6kcji1x, line 130: Command 'set -euo pipefail; Rscript --vanilla /home/epi2mewsl/bin/drop_demo/.snakemake/scripts/tmp4hbhdl2d.01_1_countRNA_splitReads_samplewise.R' returned non-zero exit status 1. File "/tmp/tmpo6kcji1x", line 130, in __rule_AberrantSplicing_pipeline_Counting_01_1_countRNA_splitReads_samplewise_R File "/home/epi2mewsl/bin/miniconda/envs/drop_env_133/lib/python3.8/concurrent/futures/thread.py", line 57, in run Shutting down, this might take some time. Exiting because a job execution failed. Look above for error message