Job ID = 7117794 SRX = SRX8639554 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:45:33 prefetch.2.10.7: 1) Downloading 'SRR12116992'... 2020-07-22T06:45:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:46:57 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:46:57 prefetch.2.10.7: 1) 'SRR12116992' was downloaded successfully 2020-07-22T06:46:57 prefetch.2.10.7: 'SRR12116992' has 0 unresolved dependencies Read 21986576 spots for SRR12116992/SRR12116992.sra Written 21986576 spots for SRR12116992/SRR12116992.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: 00:10:27 21986576 reads; of these: 21986576 (100.00%) were paired; of these: 3978117 (18.09%) aligned concordantly 0 times 15832393 (72.01%) aligned concordantly exactly 1 time 2176066 (9.90%) aligned concordantly >1 times ---- 3978117 pairs aligned concordantly 0 times; of these: 177953 (4.47%) aligned discordantly 1 time ---- 3800164 pairs aligned 0 times concordantly or discordantly; of these: 7600328 mates make up the pairs; of these: 7294177 (95.97%) aligned 0 times 212709 (2.80%) aligned exactly 1 time 93442 (1.23%) aligned >1 times 83.41% overall alignment rate Time searching: 00:10:27 Overall time: 00:10:27 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 16 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] 305975 / 18163340 = 0.0168 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 16:06:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.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 16:06:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:51: 1000000 INFO @ Wed, 22 Jul 2020 16:06:56: 2000000 INFO @ Wed, 22 Jul 2020 16:07:01: 3000000 INFO @ Wed, 22 Jul 2020 16:07:06: 4000000 INFO @ Wed, 22 Jul 2020 16:07:11: 5000000 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 16:07:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.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 16:07:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:07:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:07:16: 6000000 INFO @ Wed, 22 Jul 2020 16:07:21: 1000000 INFO @ Wed, 22 Jul 2020 16:07:21: 7000000 INFO @ Wed, 22 Jul 2020 16:07:26: 2000000 INFO @ Wed, 22 Jul 2020 16:07:27: 8000000 INFO @ Wed, 22 Jul 2020 16:07:30: 3000000 INFO @ Wed, 22 Jul 2020 16:07:32: 9000000 INFO @ Wed, 22 Jul 2020 16:07:35: 4000000 INFO @ Wed, 22 Jul 2020 16:07:37: 10000000 INFO @ Wed, 22 Jul 2020 16:07:40: 5000000 INFO @ Wed, 22 Jul 2020 16:07:43: 11000000 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 16:07:45: 6000000 INFO @ Wed, 22 Jul 2020 16:07:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.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 16:07:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:07:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:07:48: 12000000 INFO @ Wed, 22 Jul 2020 16:07:50: 7000000 INFO @ Wed, 22 Jul 2020 16:07:51: 1000000 INFO @ Wed, 22 Jul 2020 16:07:53: 13000000 INFO @ Wed, 22 Jul 2020 16:07:55: 8000000 INFO @ Wed, 22 Jul 2020 16:07:57: 2000000 INFO @ Wed, 22 Jul 2020 16:07:59: 14000000 INFO @ Wed, 22 Jul 2020 16:08:00: 9000000 INFO @ Wed, 22 Jul 2020 16:08:02: 3000000 INFO @ Wed, 22 Jul 2020 16:08:04: 15000000 INFO @ Wed, 22 Jul 2020 16:08:05: 10000000 INFO @ Wed, 22 Jul 2020 16:08:08: 4000000 INFO @ Wed, 22 Jul 2020 16:08:10: 16000000 INFO @ Wed, 22 Jul 2020 16:08:10: 11000000 INFO @ Wed, 22 Jul 2020 16:08:14: 5000000 INFO @ Wed, 22 Jul 2020 16:08:15: 12000000 INFO @ Wed, 22 Jul 2020 16:08:16: 17000000 INFO @ Wed, 22 Jul 2020 16:08:19: 6000000 INFO @ Wed, 22 Jul 2020 16:08:20: 13000000 INFO @ Wed, 22 Jul 2020 16:08:21: 18000000 INFO @ Wed, 22 Jul 2020 16:08:25: 7000000 INFO @ Wed, 22 Jul 2020 16:08:25: 14000000 INFO @ Wed, 22 Jul 2020 16:08:27: 19000000 INFO @ Wed, 22 Jul 2020 16:08:30: 15000000 INFO @ Wed, 22 Jul 2020 16:08:30: 8000000 INFO @ Wed, 22 Jul 2020 16:08:32: 20000000 INFO @ Wed, 22 Jul 2020 16:08:35: 16000000 INFO @ Wed, 22 Jul 2020 16:08:36: 9000000 INFO @ Wed, 22 Jul 2020 16:08:38: 21000000 INFO @ Wed, 22 Jul 2020 16:08:40: 17000000 INFO @ Wed, 22 Jul 2020 16:08:42: 10000000 INFO @ Wed, 22 Jul 2020 16:08:43: 22000000 INFO @ Wed, 22 Jul 2020 16:08:45: 18000000 INFO @ Wed, 22 Jul 2020 16:08:47: 11000000 INFO @ Wed, 22 Jul 2020 16:08:48: 23000000 INFO @ Wed, 22 Jul 2020 16:08:50: 19000000 INFO @ Wed, 22 Jul 2020 16:08:53: 12000000 INFO @ Wed, 22 Jul 2020 16:08:54: 24000000 INFO @ Wed, 22 Jul 2020 16:08:55: 20000000 INFO @ Wed, 22 Jul 2020 16:08:58: 13000000 INFO @ Wed, 22 Jul 2020 16:08:59: 25000000 INFO @ Wed, 22 Jul 2020 16:09:00: 21000000 INFO @ Wed, 22 Jul 2020 16:09:04: 14000000 INFO @ Wed, 22 Jul 2020 16:09:05: 26000000 INFO @ Wed, 22 Jul 2020 16:09:05: 22000000 INFO @ Wed, 22 Jul 2020 16:09:10: 15000000 INFO @ Wed, 22 Jul 2020 16:09:10: 23000000 INFO @ Wed, 22 Jul 2020 16:09:10: 27000000 INFO @ Wed, 22 Jul 2020 16:09:15: 24000000 INFO @ Wed, 22 Jul 2020 16:09:15: 16000000 INFO @ Wed, 22 Jul 2020 16:09:15: 28000000 INFO @ Wed, 22 Jul 2020 16:09:20: 25000000 INFO @ Wed, 22 Jul 2020 16:09:21: 29000000 INFO @ Wed, 22 Jul 2020 16:09:21: 17000000 INFO @ Wed, 22 Jul 2020 16:09:25: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:09:26: 30000000 INFO @ Wed, 22 Jul 2020 16:09:26: 18000000 INFO @ Wed, 22 Jul 2020 16:09:30: 27000000 INFO @ Wed, 22 Jul 2020 16:09:31: 31000000 INFO @ Wed, 22 Jul 2020 16:09:32: 19000000 INFO @ Wed, 22 Jul 2020 16:09:34: 28000000 INFO @ Wed, 22 Jul 2020 16:09:36: 32000000 INFO @ Wed, 22 Jul 2020 16:09:37: 20000000 INFO @ Wed, 22 Jul 2020 16:09:39: 29000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:09:41: 33000000 INFO @ Wed, 22 Jul 2020 16:09:43: 21000000 INFO @ Wed, 22 Jul 2020 16:09:44: 30000000 INFO @ Wed, 22 Jul 2020 16:09:46: 34000000 INFO @ Wed, 22 Jul 2020 16:09:48: 22000000 INFO @ Wed, 22 Jul 2020 16:09:49: 31000000 INFO @ Wed, 22 Jul 2020 16:09:51: 35000000 INFO @ Wed, 22 Jul 2020 16:09:54: 32000000 INFO @ Wed, 22 Jul 2020 16:09:54: 23000000 INFO @ Wed, 22 Jul 2020 16:09:56: 36000000 INFO @ Wed, 22 Jul 2020 16:09:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:57: #1 total tags in treatment: 17702763 INFO @ Wed, 22 Jul 2020 16:09:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:57: #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 16:09:57: #1 tags after filtering in treatment: 11719317 INFO @ Wed, 22 Jul 2020 16:09:57: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:09:57: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:58: 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 16:09:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.05_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/SRX8639554/SRX8639554.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:58: 33000000 INFO @ Wed, 22 Jul 2020 16:09:59: 24000000 INFO @ Wed, 22 Jul 2020 16:10:03: 34000000 INFO @ Wed, 22 Jul 2020 16:10:05: 25000000 INFO @ Wed, 22 Jul 2020 16:10:08: 35000000 INFO @ Wed, 22 Jul 2020 16:10:10: 26000000 INFO @ Wed, 22 Jul 2020 16:10:12: 36000000 INFO @ Wed, 22 Jul 2020 16:10:13: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:13: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:13: #1 total tags in treatment: 17702763 INFO @ Wed, 22 Jul 2020 16:10:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:13: #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 16:10:13: #1 tags after filtering in treatment: 11719317 INFO @ Wed, 22 Jul 2020 16:10:13: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:10:13: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:13: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:14: 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 16:10:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.10_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/SRX8639554/SRX8639554.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:16: 27000000 INFO @ Wed, 22 Jul 2020 16:10:21: 28000000 INFO @ Wed, 22 Jul 2020 16:10:26: 29000000 INFO @ Wed, 22 Jul 2020 16:10:31: 30000000 INFO @ Wed, 22 Jul 2020 16:10:37: 31000000 INFO @ Wed, 22 Jul 2020 16:10:42: 32000000 INFO @ Wed, 22 Jul 2020 16:10:47: 33000000 INFO @ Wed, 22 Jul 2020 16:10:52: 34000000 INFO @ Wed, 22 Jul 2020 16:10:57: 35000000 INFO @ Wed, 22 Jul 2020 16:11:02: 36000000 INFO @ Wed, 22 Jul 2020 16:11:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:11:03: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:11:03: #1 total tags in treatment: 17702763 INFO @ Wed, 22 Jul 2020 16:11:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:11:03: #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 16:11:03: #1 tags after filtering in treatment: 11719317 INFO @ Wed, 22 Jul 2020 16:11:03: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:11:03: #1 finished! INFO @ Wed, 22 Jul 2020 16:11:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:11:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:11:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:11:04: 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 @ Wed, 22 Jul 2020 16:11:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.20_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/SRX8639554/SRX8639554.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639554/SRX8639554.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling