Hello,

tailseeker (version 3.1.6) delivers the AYB error below.

Provided cores: 96
Rules claiming more threads will be scaled down.
Job counts:
    count   jobs
    20  STAR_alignment
    1   all
    10  apply_short_polya_filter
    10  associate_tags_to_genes
    64  basecall_ayb
    2   calculate_optimal_parameters
    10  contaminant_alignment
    10  count_multiple_associations
    10  extract_short_polya_tag_alignments
    20  filter_approximate_duplicates
    1   finalize_measurement_params
    10  find_approximate_duplicates
    1   generate_accuracy_stats
    1   generate_polya_length_distribution_stats_level1
    1   generate_polya_length_distribution_stats_level2
    10  generate_short_polya_list
    20  index_alignments
    10  index_sorted_alignments
    20  make_filtered_fastq
    60  make_gene_level_counts
    20  make_gene_level_statistics
    10  make_read5_position_dists
    128 measure_polya_lengths_from_fluorescence
    20  merge_alignments
    15  merge_and_deduplicate_taginfo
    2   merge_gene_level_stats
    1   merge_polya_sites_list
    1   merge_read5_position_dists
    1   merge_signal_processing_stats
    1   plot_global_polya_length_histogram
    1   plot_global_polya_length_histogram_level2
    1   plot_global_polya_length_virtual_gel
    64  process_signals
    10  produce_fastq_outputs
    10  reevaluate_tails
    20  sort_alignments
    10  tabix_index_taginfo
    10  update_refined_taginfo_for_mapped
    616
rule basecall_ayb:
    output: scratch/aybcalls/R5_a1215.fastq.gz
    wildcards: read=R5, tile=a1215
    threads: 32
rule basecall_ayb:
    output: scratch/aybcalls/R5_a2207.fastq.gz
    wildcards: read=R5, tile=a2207
    threads: 32
rule basecall_ayb:
    output: scratch/aybcalls/R5_a1113.fastq.gz
    wildcards: read=R5, tile=a1113
    threads: 32
AYB Message Log;    Created by james;   28 February 2017 20:21


AYB Message Log;    Created by james;   28 February 2017 20:21

AYB Message Log;    Created by james;   28 February 2017 20:21

Information: Information: Log message output level: Warning
Log message output level: Warning
Information: Log message output level: Warning
Information: Input from directory: /location/sample/
Information: Input format selected: cif
Information: Run-folder selected: 
Information: Output to directory: /location/sample/scratch/aybcalls/R5_a1215
Information: Information: Input from directory: /location/sample/
Output format selected: fastq.gz
Information: Information: Input format selected: cif
Number of cycles total selected: 100
Information: Information: Information: Number of distinct data blocks selected: 1
Input from directory: /location/sample/
Run-folder selected: 
Information: Information: Information: Input format selected: cif
Number of iterations selected: 5
Information: Output to directory: /location/sample/scratch/aybcalls/R5_a1113
Information: Information: Run-folder selected: 
Thin factor selected: 1
Information: Information: Output to directory: /location/sample/scratch/aybcalls/R5_a2207
Thin clusters with 3 or more zero data cycles
Information: Information: Output format selected: fastq.gz
Quality calibration by calibration table selected
Information: Output format selected: fastq.gz
Information: Information: Generalised error value selected: 38
Number of cycles total selected: 100
Number of cycles total selected: 100
Information: Information: Information: Number of distinct data blocks selected: 1
Using 32 thread(s) (32 requested)
Information: Number of distinct data blocks selected: 1
Number of iterations selected: 5
Information: Information: Number of iterations selected: 5
Information: Lane tile range selected: lanes: 1, tiles 1215
Thin factor selected: 1
Information: Information: Thin factor selected: 1
Thin clusters with 3 or more zero data cycles
Information: Information: Thin clusters with 3 or more zero data cycles
Quality calibration by calibration table selected
Information: Quality calibration by calibration table selected
Information: Information: Generalised error value selected: 38
Generalised error value selected: 38
Information: Information: Using 32 thread(s) (32 requested)
Using 32 thread(s) (32 requested)
Information: Information: Lane tile range selected: lanes: 1, tiles 1113
Lane tile range selected: lanes: 1, tiles 2207
/bin/bash: line 1: 35320 Segmentation fault      (core dumped) /Applications/folder/work/bin/AYB2/bin/AYB -p 32 -o /location/sample/scratch/aybcalls/R5_a1113 -i /location/sample/ -b R100 -f fastq.gz -r L1T1113
Error in job basecall_ayb while creating output file scratch/aybcalls/R5_a1113.fastq.gz.
RuleException:
CalledProcessError in line 156 of /Applications/folder/work/bin/tailseeker_v316_feb2017/tailseeker/main.py:
Command '/Applications/folder/work/bin/AYB2/bin/AYB -p 32 -o /location/sample/scratch/aybcalls/R5_a1113 -i /location/sample/                 -b R100 -f fastq.gz -r L1T1113' returned non-zero exit status 139
  File "/Applications/folder/work/bin/tailseeker_v316_feb2017/tailseeker/main.py", line 156, in __rule_basecall_ayb
Will exit after finishing currently running jobs.
/bin/bash: line 1: 35319 Segmentation fault      (core dumped) /Applications/folder/work/bin/AYB2/bin/AYB -p 32 -o /location/sample/scratch/aybcalls/R5_a1215 -i /location/sample/ -b R100 -f fastq.gz -r L1T1215
Error in job basecall_ayb while creating output file scratch/aybcalls/R5_a1215.fastq.gz.
RuleException:
CalledProcessError in line 156 of /Applications/folder/work/bin/tailseeker_v316_feb2017/tailseeker/main.py:
Command '/Applications/folder/work/bin/AYB2/bin/AYB -p 32 -o /location/sample/scratch/aybcalls/R5_a1215 -i /location/sample/                 -b R100 -f fastq.gz -r L1T1215' returned non-zero exit status 139
  File "/Applications/folder/work/bin/tailseeker_v316_feb2017/tailseeker/main.py", line 156, in __rule_basecall_ayb
Will exit after finishing currently running jobs.
/bin/bash: line 1: 35321 Segmentation fault      (core dumped) /Applications/folder/work/bin/AYB2/bin/AYB -p 32 -o /location/sample/scratch/aybcalls/R5_a2207 -i /location/sample/ -b R100 -f fastq.gz -r L1T2207
Error in job basecall_ayb while creating output file scratch/aybcalls/R5_a2207.fastq.gz.
RuleException:
CalledProcessError in line 156 of /Applications/folder/work/bin/tailseeker_v316_feb2017/tailseeker/main.py:
Command '/Applications/folder/work/bin/AYB2/bin/AYB -p 32 -o /location/sample/scratch/aybcalls/R5_a2207 -i /location/sample/                 -b R100 -f fastq.gz -r L1T2207' returned non-zero exit status 139
  File "/Applications/folder/work/bin/tailseeker_v316_feb2017/tailseeker/main.py", line 156, in __rule_basecall_ayb
Will exit after finishing currently running jobs.
Exiting because a job execution failed. Look above for error message