Job ID = 14520139 SRX = SRX9345656 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 19573457 spots for SRR12879680/SRR12879680.sra Written 19573457 spots for SRR12879680/SRR12879680.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:19:45 19573457 reads; of these: 19573457 (100.00%) were paired; of these: 1777631 (9.08%) aligned concordantly 0 times 14455632 (73.85%) aligned concordantly exactly 1 time 3340194 (17.06%) aligned concordantly >1 times ---- 1777631 pairs aligned concordantly 0 times; of these: 284955 (16.03%) aligned discordantly 1 time ---- 1492676 pairs aligned 0 times concordantly or discordantly; of these: 2985352 mates make up the pairs; of these: 2142838 (71.78%) aligned 0 times 574986 (19.26%) aligned exactly 1 time 267528 (8.96%) aligned >1 times 94.53% overall alignment rate Time searching: 00:19:45 Overall time: 00:19:45 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 28 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 233860 / 5580637 = 0.0419 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 @ Sat, 15 Jan 2022 19:04:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.bam'] # control file = None # effective genome size = 1.21e+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 @ Sat, 15 Jan 2022 19:04:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:04:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:04:50: 1000000 INFO @ Sat, 15 Jan 2022 19:04:57: 2000000 INFO @ Sat, 15 Jan 2022 19:05:04: 3000000 INFO @ Sat, 15 Jan 2022 19:05:11: 4000000 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 @ Sat, 15 Jan 2022 19:05:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.bam'] # control file = None # effective genome size = 1.21e+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 @ Sat, 15 Jan 2022 19:05:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:05:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:05:19: 5000000 INFO @ Sat, 15 Jan 2022 19:05:20: 1000000 INFO @ Sat, 15 Jan 2022 19:05:26: 2000000 INFO @ Sat, 15 Jan 2022 19:05:26: 6000000 INFO @ Sat, 15 Jan 2022 19:05:32: 3000000 INFO @ Sat, 15 Jan 2022 19:05:34: 7000000 INFO @ Sat, 15 Jan 2022 19:05:39: 4000000 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 @ Sat, 15 Jan 2022 19:05:41: 8000000 INFO @ Sat, 15 Jan 2022 19:05:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.bam'] # control file = None # effective genome size = 1.21e+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 @ Sat, 15 Jan 2022 19:05:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:05:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:05:45: 5000000 INFO @ Sat, 15 Jan 2022 19:05:49: 9000000 INFO @ Sat, 15 Jan 2022 19:05:50: 1000000 INFO @ Sat, 15 Jan 2022 19:05:51: 6000000 INFO @ Sat, 15 Jan 2022 19:05:57: 10000000 INFO @ Sat, 15 Jan 2022 19:05:58: 2000000 INFO @ Sat, 15 Jan 2022 19:05:58: 7000000 INFO @ Sat, 15 Jan 2022 19:06:04: 11000000 INFO @ Sat, 15 Jan 2022 19:06:04: 8000000 INFO @ Sat, 15 Jan 2022 19:06:05: 3000000 INFO @ Sat, 15 Jan 2022 19:06:11: 9000000 INFO @ Sat, 15 Jan 2022 19:06:12: 12000000 INFO @ Sat, 15 Jan 2022 19:06:12: 4000000 INFO @ Sat, 15 Jan 2022 19:06:17: 10000000 INFO @ Sat, 15 Jan 2022 19:06:19: 5000000 INFO @ Sat, 15 Jan 2022 19:06:19: 13000000 INFO @ Sat, 15 Jan 2022 19:06:23: 11000000 INFO @ Sat, 15 Jan 2022 19:06:26: 6000000 INFO @ Sat, 15 Jan 2022 19:06:27: 14000000 INFO @ Sat, 15 Jan 2022 19:06:30: 12000000 INFO @ Sat, 15 Jan 2022 19:06:33: 7000000 INFO @ Sat, 15 Jan 2022 19:06:34: 15000000 INFO @ Sat, 15 Jan 2022 19:06:36: 13000000 INFO @ Sat, 15 Jan 2022 19:06:41: 8000000 INFO @ Sat, 15 Jan 2022 19:06:41: 16000000 INFO @ Sat, 15 Jan 2022 19:06:43: 14000000 INFO @ Sat, 15 Jan 2022 19:06:48: 9000000 INFO @ Sat, 15 Jan 2022 19:06:49: 17000000 INFO @ Sat, 15 Jan 2022 19:06:50: 15000000 INFO @ Sat, 15 Jan 2022 19:06:55: 10000000 INFO @ Sat, 15 Jan 2022 19:06:56: 18000000 INFO @ Sat, 15 Jan 2022 19:06:56: 16000000 INFO @ Sat, 15 Jan 2022 19:07:02: 11000000 INFO @ Sat, 15 Jan 2022 19:07:02: 17000000 INFO @ Sat, 15 Jan 2022 19:07:03: 19000000 INFO @ Sat, 15 Jan 2022 19:07:09: 18000000 INFO @ Sat, 15 Jan 2022 19:07:09: 12000000 INFO @ Sat, 15 Jan 2022 19:07:11: 20000000 INFO @ Sat, 15 Jan 2022 19:07:15: 19000000 INFO @ Sat, 15 Jan 2022 19:07:16: 13000000 INFO @ Sat, 15 Jan 2022 19:07:18: 21000000 INFO @ Sat, 15 Jan 2022 19:07:21: 20000000 INFO @ Sat, 15 Jan 2022 19:07:23: 14000000 INFO @ Sat, 15 Jan 2022 19:07:25: 22000000 INFO @ Sat, 15 Jan 2022 19:07:28: 21000000 INFO @ Sat, 15 Jan 2022 19:07:31: 15000000 INFO @ Sat, 15 Jan 2022 19:07:33: 23000000 INFO @ Sat, 15 Jan 2022 19:07:34: 22000000 INFO @ Sat, 15 Jan 2022 19:07:38: 16000000 INFO @ Sat, 15 Jan 2022 19:07:40: 24000000 INFO @ Sat, 15 Jan 2022 19:07:40: 23000000 INFO @ Sat, 15 Jan 2022 19:07:45: 17000000 INFO @ Sat, 15 Jan 2022 19:07:47: 24000000 INFO @ Sat, 15 Jan 2022 19:07:47: 25000000 INFO @ Sat, 15 Jan 2022 19:07:52: 18000000 INFO @ Sat, 15 Jan 2022 19:07:53: 25000000 INFO @ Sat, 15 Jan 2022 19:07:54: 26000000 INFO @ Sat, 15 Jan 2022 19:07:59: 19000000 INFO @ Sat, 15 Jan 2022 19:07:59: 26000000 INFO @ Sat, 15 Jan 2022 19:08:01: 27000000 INFO @ Sat, 15 Jan 2022 19:08:06: 27000000 INFO @ Sat, 15 Jan 2022 19:08:06: 20000000 INFO @ Sat, 15 Jan 2022 19:08:08: 28000000 INFO @ Sat, 15 Jan 2022 19:08:12: 28000000 INFO @ Sat, 15 Jan 2022 19:08:13: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:08:16: 29000000 INFO @ Sat, 15 Jan 2022 19:08:19: 29000000 INFO @ Sat, 15 Jan 2022 19:08:20: 22000000 INFO @ Sat, 15 Jan 2022 19:08:23: 30000000 INFO @ Sat, 15 Jan 2022 19:08:26: 30000000 INFO @ Sat, 15 Jan 2022 19:08:28: 23000000 INFO @ Sat, 15 Jan 2022 19:08:30: 31000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:08:32: 31000000 INFO @ Sat, 15 Jan 2022 19:08:35: 24000000 INFO @ Sat, 15 Jan 2022 19:08:37: 32000000 INFO @ Sat, 15 Jan 2022 19:08:39: 32000000 INFO @ Sat, 15 Jan 2022 19:08:42: 25000000 INFO @ Sat, 15 Jan 2022 19:08:44: 33000000 INFO @ Sat, 15 Jan 2022 19:08:46: 33000000 INFO @ Sat, 15 Jan 2022 19:08:49: 26000000 INFO @ Sat, 15 Jan 2022 19:08:51: 34000000 INFO @ Sat, 15 Jan 2022 19:08:53: 34000000 INFO @ Sat, 15 Jan 2022 19:08:56: 27000000 INFO @ Sat, 15 Jan 2022 19:08:58: 35000000 INFO @ Sat, 15 Jan 2022 19:09:00: 35000000 INFO @ Sat, 15 Jan 2022 19:09:03: 28000000 INFO @ Sat, 15 Jan 2022 19:09:06: 36000000 INFO @ Sat, 15 Jan 2022 19:09:07: 36000000 INFO @ Sat, 15 Jan 2022 19:09:10: #1 tag size is determined as 68 bps INFO @ Sat, 15 Jan 2022 19:09:10: #1 tag size = 68 INFO @ Sat, 15 Jan 2022 19:09:10: #1 total tags in treatment: 17564150 INFO @ Sat, 15 Jan 2022 19:09:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:09:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:09:10: #1 tags after filtering in treatment: 10836675 INFO @ Sat, 15 Jan 2022 19:09:10: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:09:10: #1 finished! INFO @ Sat, 15 Jan 2022 19:09:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:09:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:09:10: 29000000 INFO @ Sat, 15 Jan 2022 19:09:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:09:11: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 19:09:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:09:11: #1 tag size is determined as 68 bps INFO @ Sat, 15 Jan 2022 19:09:11: #1 tag size = 68 INFO @ Sat, 15 Jan 2022 19:09:11: #1 total tags in treatment: 17564150 INFO @ Sat, 15 Jan 2022 19:09:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:09:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:09:11: #1 tags after filtering in treatment: 10836675 INFO @ Sat, 15 Jan 2022 19:09:11: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:09:11: #1 finished! INFO @ Sat, 15 Jan 2022 19:09:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:09:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:09:12: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:09:12: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 19:09:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:09:17: 30000000 INFO @ Sat, 15 Jan 2022 19:09:24: 31000000 INFO @ Sat, 15 Jan 2022 19:09:31: 32000000 INFO @ Sat, 15 Jan 2022 19:09:38: 33000000 INFO @ Sat, 15 Jan 2022 19:09:45: 34000000 INFO @ Sat, 15 Jan 2022 19:09:52: 35000000 INFO @ Sat, 15 Jan 2022 19:09:59: 36000000 INFO @ Sat, 15 Jan 2022 19:10:03: #1 tag size is determined as 68 bps INFO @ Sat, 15 Jan 2022 19:10:03: #1 tag size = 68 INFO @ Sat, 15 Jan 2022 19:10:03: #1 total tags in treatment: 17564150 INFO @ Sat, 15 Jan 2022 19:10:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:10:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:10:03: #1 tags after filtering in treatment: 10836675 INFO @ Sat, 15 Jan 2022 19:10:03: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:10:03: #1 finished! INFO @ Sat, 15 Jan 2022 19:10:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:10:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:10:04: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:10:04: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 19:10:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345656/SRX9345656.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling