Job ID = 14160575 SRX = SRX10399017 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 33835557 spots for SRR14022405/SRR14022405.sra Written 33835557 spots for SRR14022405/SRR14022405.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160751 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:47 33835557 reads; of these: 33835557 (100.00%) were unpaired; of these: 1821430 (5.38%) aligned 0 times 26810424 (79.24%) aligned exactly 1 time 5203703 (15.38%) aligned >1 times 94.62% overall alignment rate Time searching: 00:13:47 Overall time: 00:13:47 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 4320199 / 32014127 = 0.1349 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:42:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 03:42:38: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:42:38: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:42:49: 1000000 INFO @ Thu, 09 Dec 2021 03:43:00: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:43:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 03:43:08: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:43:08: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:43:09: 3000000 INFO @ Thu, 09 Dec 2021 03:43:18: 1000000 INFO @ Thu, 09 Dec 2021 03:43:19: 4000000 INFO @ Thu, 09 Dec 2021 03:43:28: 5000000 INFO @ Thu, 09 Dec 2021 03:43:28: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:43:38: 6000000 INFO @ Thu, 09 Dec 2021 03:43:38: 3000000 INFO @ Thu, 09 Dec 2021 03:43:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 03:43:38: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:43:38: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:43:47: 4000000 INFO @ Thu, 09 Dec 2021 03:43:49: 7000000 INFO @ Thu, 09 Dec 2021 03:43:49: 1000000 INFO @ Thu, 09 Dec 2021 03:43:57: 5000000 INFO @ Thu, 09 Dec 2021 03:43:58: 8000000 INFO @ Thu, 09 Dec 2021 03:43:59: 2000000 INFO @ Thu, 09 Dec 2021 03:44:07: 6000000 INFO @ Thu, 09 Dec 2021 03:44:07: 9000000 INFO @ Thu, 09 Dec 2021 03:44:09: 3000000 INFO @ Thu, 09 Dec 2021 03:44:17: 10000000 INFO @ Thu, 09 Dec 2021 03:44:18: 7000000 INFO @ Thu, 09 Dec 2021 03:44:19: 4000000 INFO @ Thu, 09 Dec 2021 03:44:26: 11000000 INFO @ Thu, 09 Dec 2021 03:44:28: 8000000 INFO @ Thu, 09 Dec 2021 03:44:29: 5000000 INFO @ Thu, 09 Dec 2021 03:44:36: 12000000 INFO @ Thu, 09 Dec 2021 03:44:37: 9000000 INFO @ Thu, 09 Dec 2021 03:44:39: 6000000 INFO @ Thu, 09 Dec 2021 03:44:45: 13000000 INFO @ Thu, 09 Dec 2021 03:44:47: 10000000 INFO @ Thu, 09 Dec 2021 03:44:50: 7000000 INFO @ Thu, 09 Dec 2021 03:44:55: 14000000 INFO @ Thu, 09 Dec 2021 03:44:57: 11000000 INFO @ Thu, 09 Dec 2021 03:45:01: 8000000 INFO @ Thu, 09 Dec 2021 03:45:05: 15000000 INFO @ Thu, 09 Dec 2021 03:45:07: 12000000 INFO @ Thu, 09 Dec 2021 03:45:10: 9000000 INFO @ Thu, 09 Dec 2021 03:45:14: 16000000 INFO @ Thu, 09 Dec 2021 03:45:17: 13000000 INFO @ Thu, 09 Dec 2021 03:45:20: 10000000 INFO @ Thu, 09 Dec 2021 03:45:24: 17000000 INFO @ Thu, 09 Dec 2021 03:45:28: 14000000 INFO @ Thu, 09 Dec 2021 03:45:31: 11000000 INFO @ Thu, 09 Dec 2021 03:45:34: 18000000 INFO @ Thu, 09 Dec 2021 03:45:38: 15000000 INFO @ Thu, 09 Dec 2021 03:45:41: 12000000 INFO @ Thu, 09 Dec 2021 03:45:44: 19000000 INFO @ Thu, 09 Dec 2021 03:45:49: 16000000 INFO @ Thu, 09 Dec 2021 03:45:51: 13000000 INFO @ Thu, 09 Dec 2021 03:45:54: 20000000 INFO @ Thu, 09 Dec 2021 03:45:59: 17000000 INFO @ Thu, 09 Dec 2021 03:46:01: 14000000 INFO @ Thu, 09 Dec 2021 03:46:04: 21000000 INFO @ Thu, 09 Dec 2021 03:46:10: 18000000 INFO @ Thu, 09 Dec 2021 03:46:11: 15000000 INFO @ Thu, 09 Dec 2021 03:46:13: 22000000 INFO @ Thu, 09 Dec 2021 03:46:20: 19000000 INFO @ Thu, 09 Dec 2021 03:46:22: 16000000 INFO @ Thu, 09 Dec 2021 03:46:23: 23000000 INFO @ Thu, 09 Dec 2021 03:46:29: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:46:32: 17000000 INFO @ Thu, 09 Dec 2021 03:46:33: 24000000 INFO @ Thu, 09 Dec 2021 03:46:39: 21000000 INFO @ Thu, 09 Dec 2021 03:46:42: 18000000 INFO @ Thu, 09 Dec 2021 03:46:43: 25000000 INFO @ Thu, 09 Dec 2021 03:46:48: 22000000 INFO @ Thu, 09 Dec 2021 03:46:52: 19000000 INFO @ Thu, 09 Dec 2021 03:46:53: 26000000 INFO @ Thu, 09 Dec 2021 03:46:58: 23000000 INFO @ Thu, 09 Dec 2021 03:47:02: 20000000 INFO @ Thu, 09 Dec 2021 03:47:03: 27000000 INFO @ Thu, 09 Dec 2021 03:47:08: 24000000 INFO @ Thu, 09 Dec 2021 03:47:09: #1 tag size is determined as 76 bps INFO @ Thu, 09 Dec 2021 03:47:09: #1 tag size = 76 INFO @ Thu, 09 Dec 2021 03:47:09: #1 total tags in treatment: 27693928 INFO @ Thu, 09 Dec 2021 03:47:09: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:47:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:47:10: #1 tags after filtering in treatment: 27693928 INFO @ Thu, 09 Dec 2021 03:47:10: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:47:10: #1 finished! INFO @ Thu, 09 Dec 2021 03:47:10: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:47:10: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:47:12: 21000000 INFO @ Thu, 09 Dec 2021 03:47:12: #2 number of paired peaks: 111 WARNING @ Thu, 09 Dec 2021 03:47:12: Fewer paired peaks (111) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 111 pairs to build model! INFO @ Thu, 09 Dec 2021 03:47:12: start model_add_line... INFO @ Thu, 09 Dec 2021 03:47:12: start X-correlation... INFO @ Thu, 09 Dec 2021 03:47:12: end of X-cor INFO @ Thu, 09 Dec 2021 03:47:12: #2 finished! INFO @ Thu, 09 Dec 2021 03:47:12: #2 predicted fragment length is 0 bps INFO @ Thu, 09 Dec 2021 03:47:12: #2 alternative fragment length(s) may be 0,15,51,592 bps INFO @ Thu, 09 Dec 2021 03:47:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.05_model.r WARNING @ Thu, 09 Dec 2021 03:47:12: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:47:12: #2 You may need to consider one of the other alternative d(s): 0,15,51,592 WARNING @ Thu, 09 Dec 2021 03:47:12: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:47:12: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:47:12: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:47:18: 25000000 INFO @ Thu, 09 Dec 2021 03:47:22: 22000000 INFO @ Thu, 09 Dec 2021 03:47:27: 26000000 INFO @ Thu, 09 Dec 2021 03:47:31: 23000000 INFO @ Thu, 09 Dec 2021 03:47:37: 27000000 INFO @ Thu, 09 Dec 2021 03:47:42: 24000000 INFO @ Thu, 09 Dec 2021 03:47:43: #1 tag size is determined as 76 bps INFO @ Thu, 09 Dec 2021 03:47:43: #1 tag size = 76 INFO @ Thu, 09 Dec 2021 03:47:43: #1 total tags in treatment: 27693928 INFO @ Thu, 09 Dec 2021 03:47:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:47:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:47:44: #1 tags after filtering in treatment: 27693928 INFO @ Thu, 09 Dec 2021 03:47:44: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:47:44: #1 finished! INFO @ Thu, 09 Dec 2021 03:47:44: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:47:44: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:47:46: #2 number of paired peaks: 111 WARNING @ Thu, 09 Dec 2021 03:47:46: Fewer paired peaks (111) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 111 pairs to build model! INFO @ Thu, 09 Dec 2021 03:47:46: start model_add_line... INFO @ Thu, 09 Dec 2021 03:47:47: start X-correlation... INFO @ Thu, 09 Dec 2021 03:47:47: end of X-cor INFO @ Thu, 09 Dec 2021 03:47:47: #2 finished! INFO @ Thu, 09 Dec 2021 03:47:47: #2 predicted fragment length is 0 bps INFO @ Thu, 09 Dec 2021 03:47:47: #2 alternative fragment length(s) may be 0,15,51,592 bps INFO @ Thu, 09 Dec 2021 03:47:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10399017/SRX10399017.10_model.r WARNING @ Thu, 09 Dec 2021 03:47:47: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:47:47: #2 You may need to consider one of the other alternative d(s): 0,15,51,592 WARNING @ Thu, 09 Dec 2021 03:47:47: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:47:47: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:47:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at073/job_scripts/14160575: line 297: 42752 Terminated MACS $i /var/spool/uge/at073/job_scripts/14160575: line 297: 43420 Terminated MACS $i /var/spool/uge/at073/job_scripts/14160575: line 297: 45653 Terminated MACS $i ls: cannot access SRX10399017.05.bed: No such file or directory mv: cannot stat ‘SRX10399017.05.bed’: No such file or directory mv: cannot stat ‘SRX10399017.05.bb’: No such file or directory ls: cannot access SRX10399017.10.bed: No such file or directory mv: cannot stat ‘SRX10399017.10.bed’: No such file or directory mv: cannot stat ‘SRX10399017.10.bb’: No such file or directory ls: cannot access SRX10399017.20.bed: No such file or directory mv: cannot stat ‘SRX10399017.20.bed’: No such file or directory mv: cannot stat ‘SRX10399017.20.bb’: No such file or directory