Job ID = 7117592 SRX = SRX8639543 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:40:36 prefetch.2.10.7: 1) Downloading 'SRR12116981'... 2020-07-22T06:40:36 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:43:22 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:43:22 prefetch.2.10.7: 1) 'SRR12116981' was downloaded successfully 2020-07-22T06:43:22 prefetch.2.10.7: 'SRR12116981' has 0 unresolved dependencies Read 24906067 spots for SRR12116981/SRR12116981.sra Written 24906067 spots for SRR12116981/SRR12116981.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: 00:11:35 24906067 reads; of these: 24906067 (100.00%) were paired; of these: 5377478 (21.59%) aligned concordantly 0 times 17282406 (69.39%) aligned concordantly exactly 1 time 2246183 (9.02%) aligned concordantly >1 times ---- 5377478 pairs aligned concordantly 0 times; of these: 108347 (2.01%) aligned discordantly 1 time ---- 5269131 pairs aligned 0 times concordantly or discordantly; of these: 10538262 mates make up the pairs; of these: 10270795 (97.46%) aligned 0 times 201305 (1.91%) aligned exactly 1 time 66162 (0.63%) aligned >1 times 79.38% overall alignment rate Time searching: 00:11:35 Overall time: 00:11:35 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 20 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] 381983 / 19613580 = 0.0195 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 16:05:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.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 @ Wed, 22 Jul 2020 16:05:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:13: 1000000 INFO @ Wed, 22 Jul 2020 16:05:18: 2000000 INFO @ Wed, 22 Jul 2020 16:05:22: 3000000 INFO @ Wed, 22 Jul 2020 16:05:26: 4000000 INFO @ Wed, 22 Jul 2020 16:05:31: 5000000 INFO @ Wed, 22 Jul 2020 16:05:36: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 16:05:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.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 @ Wed, 22 Jul 2020 16:05:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:41: 7000000 INFO @ Wed, 22 Jul 2020 16:05:43: 1000000 INFO @ Wed, 22 Jul 2020 16:05:46: 8000000 INFO @ Wed, 22 Jul 2020 16:05:48: 2000000 INFO @ Wed, 22 Jul 2020 16:05:50: 9000000 INFO @ Wed, 22 Jul 2020 16:05:53: 3000000 INFO @ Wed, 22 Jul 2020 16:05:55: 10000000 INFO @ Wed, 22 Jul 2020 16:05:58: 4000000 INFO @ Wed, 22 Jul 2020 16:06:00: 11000000 INFO @ Wed, 22 Jul 2020 16:06:03: 5000000 INFO @ Wed, 22 Jul 2020 16:06:05: 12000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 16:06:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.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 @ Wed, 22 Jul 2020 16:06:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:08: 6000000 INFO @ Wed, 22 Jul 2020 16:06:10: 13000000 INFO @ Wed, 22 Jul 2020 16:06:14: 1000000 INFO @ Wed, 22 Jul 2020 16:06:14: 7000000 INFO @ Wed, 22 Jul 2020 16:06:16: 14000000 INFO @ Wed, 22 Jul 2020 16:06:19: 8000000 INFO @ Wed, 22 Jul 2020 16:06:19: 2000000 INFO @ Wed, 22 Jul 2020 16:06:21: 15000000 INFO @ Wed, 22 Jul 2020 16:06:24: 9000000 INFO @ Wed, 22 Jul 2020 16:06:25: 3000000 INFO @ Wed, 22 Jul 2020 16:06:26: 16000000 INFO @ Wed, 22 Jul 2020 16:06:29: 10000000 INFO @ Wed, 22 Jul 2020 16:06:31: 4000000 INFO @ Wed, 22 Jul 2020 16:06:31: 17000000 INFO @ Wed, 22 Jul 2020 16:06:34: 11000000 INFO @ Wed, 22 Jul 2020 16:06:36: 18000000 INFO @ Wed, 22 Jul 2020 16:06:36: 5000000 INFO @ Wed, 22 Jul 2020 16:06:39: 12000000 INFO @ Wed, 22 Jul 2020 16:06:41: 19000000 INFO @ Wed, 22 Jul 2020 16:06:41: 6000000 INFO @ Wed, 22 Jul 2020 16:06:45: 13000000 INFO @ Wed, 22 Jul 2020 16:06:47: 20000000 INFO @ Wed, 22 Jul 2020 16:06:47: 7000000 INFO @ Wed, 22 Jul 2020 16:06:50: 14000000 INFO @ Wed, 22 Jul 2020 16:06:52: 21000000 INFO @ Wed, 22 Jul 2020 16:06:52: 8000000 INFO @ Wed, 22 Jul 2020 16:06:55: 15000000 INFO @ Wed, 22 Jul 2020 16:06:57: 22000000 INFO @ Wed, 22 Jul 2020 16:06:58: 9000000 INFO @ Wed, 22 Jul 2020 16:07:00: 16000000 INFO @ Wed, 22 Jul 2020 16:07:02: 23000000 INFO @ Wed, 22 Jul 2020 16:07:04: 10000000 INFO @ Wed, 22 Jul 2020 16:07:06: 17000000 INFO @ Wed, 22 Jul 2020 16:07:07: 24000000 INFO @ Wed, 22 Jul 2020 16:07:09: 11000000 INFO @ Wed, 22 Jul 2020 16:07:11: 18000000 INFO @ Wed, 22 Jul 2020 16:07:12: 25000000 INFO @ Wed, 22 Jul 2020 16:07:15: 12000000 INFO @ Wed, 22 Jul 2020 16:07:16: 19000000 INFO @ Wed, 22 Jul 2020 16:07:17: 26000000 INFO @ Wed, 22 Jul 2020 16:07:21: 13000000 INFO @ Wed, 22 Jul 2020 16:07:21: 20000000 INFO @ Wed, 22 Jul 2020 16:07:23: 27000000 INFO @ Wed, 22 Jul 2020 16:07:26: 21000000 INFO @ Wed, 22 Jul 2020 16:07:26: 14000000 INFO @ Wed, 22 Jul 2020 16:07:28: 28000000 INFO @ Wed, 22 Jul 2020 16:07:31: 22000000 INFO @ Wed, 22 Jul 2020 16:07:32: 15000000 INFO @ Wed, 22 Jul 2020 16:07:33: 29000000 INFO @ Wed, 22 Jul 2020 16:07:36: 23000000 INFO @ Wed, 22 Jul 2020 16:07:38: 16000000 INFO @ Wed, 22 Jul 2020 16:07:39: 30000000 INFO @ Wed, 22 Jul 2020 16:07:41: 24000000 INFO @ Wed, 22 Jul 2020 16:07:44: 17000000 INFO @ Wed, 22 Jul 2020 16:07:44: 31000000 INFO @ Wed, 22 Jul 2020 16:07:47: 25000000 INFO @ Wed, 22 Jul 2020 16:07:49: 18000000 INFO @ Wed, 22 Jul 2020 16:07:49: 32000000 INFO @ Wed, 22 Jul 2020 16:07:52: 26000000 INFO @ Wed, 22 Jul 2020 16:07:55: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:07:55: 19000000 INFO @ Wed, 22 Jul 2020 16:07:57: 27000000 INFO @ Wed, 22 Jul 2020 16:08:00: 34000000 INFO @ Wed, 22 Jul 2020 16:08:01: 20000000 INFO @ Wed, 22 Jul 2020 16:08:02: 28000000 INFO @ Wed, 22 Jul 2020 16:08:06: 35000000 INFO @ Wed, 22 Jul 2020 16:08:07: 21000000 INFO @ Wed, 22 Jul 2020 16:08:07: 29000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:08:11: 36000000 INFO @ Wed, 22 Jul 2020 16:08:12: 30000000 INFO @ Wed, 22 Jul 2020 16:08:12: 22000000 INFO @ Wed, 22 Jul 2020 16:08:17: 37000000 INFO @ Wed, 22 Jul 2020 16:08:17: 31000000 INFO @ Wed, 22 Jul 2020 16:08:18: 23000000 INFO @ Wed, 22 Jul 2020 16:08:22: 32000000 INFO @ Wed, 22 Jul 2020 16:08:23: 38000000 INFO @ Wed, 22 Jul 2020 16:08:24: 24000000 INFO @ Wed, 22 Jul 2020 16:08:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:27: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:27: #1 total tags in treatment: 19146744 INFO @ Wed, 22 Jul 2020 16:08:27: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:08:27: #1 tags after filtering in treatment: 12377988 INFO @ Wed, 22 Jul 2020 16:08:27: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:08:27: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:27: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:28: 33000000 INFO @ Wed, 22 Jul 2020 16:08:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:28: 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 @ Wed, 22 Jul 2020 16:08:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.05_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/SRX8639543/SRX8639543.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:08:30: 25000000 INFO @ Wed, 22 Jul 2020 16:08:33: 34000000 INFO @ Wed, 22 Jul 2020 16:08:35: 26000000 INFO @ Wed, 22 Jul 2020 16:08:38: 35000000 INFO @ Wed, 22 Jul 2020 16:08:41: 27000000 INFO @ Wed, 22 Jul 2020 16:08:43: 36000000 INFO @ Wed, 22 Jul 2020 16:08:46: 28000000 INFO @ Wed, 22 Jul 2020 16:08:48: 37000000 INFO @ Wed, 22 Jul 2020 16:08:52: 29000000 INFO @ Wed, 22 Jul 2020 16:08:53: 38000000 INFO @ Wed, 22 Jul 2020 16:08:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:57: #1 total tags in treatment: 19146744 INFO @ Wed, 22 Jul 2020 16:08:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:08:58: 30000000 INFO @ Wed, 22 Jul 2020 16:08:58: #1 tags after filtering in treatment: 12377988 INFO @ Wed, 22 Jul 2020 16:08:58: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:08:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:58: 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 @ Wed, 22 Jul 2020 16:08:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.10_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/SRX8639543/SRX8639543.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:03: 31000000 INFO @ Wed, 22 Jul 2020 16:09:08: 32000000 INFO @ Wed, 22 Jul 2020 16:09:14: 33000000 INFO @ Wed, 22 Jul 2020 16:09:19: 34000000 INFO @ Wed, 22 Jul 2020 16:09:25: 35000000 INFO @ Wed, 22 Jul 2020 16:09:30: 36000000 INFO @ Wed, 22 Jul 2020 16:09:35: 37000000 INFO @ Wed, 22 Jul 2020 16:09:41: 38000000 INFO @ Wed, 22 Jul 2020 16:09:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:45: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:45: #1 total tags in treatment: 19146744 INFO @ Wed, 22 Jul 2020 16:09:45: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:09:45: #1 tags after filtering in treatment: 12377988 INFO @ Wed, 22 Jul 2020 16:09:45: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:09:45: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:45: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:46: 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 @ Wed, 22 Jul 2020 16:09:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.20_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/SRX8639543/SRX8639543.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639543/SRX8639543.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling