Job ID = 7117660 SRX = SRX8639546 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:42:09 prefetch.2.10.7: 1) Downloading 'SRR12116984'... 2020-07-22T06:42:09 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:44:41 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:44:41 prefetch.2.10.7: 1) 'SRR12116984' was downloaded successfully 2020-07-22T06:44:41 prefetch.2.10.7: 'SRR12116984' has 0 unresolved dependencies Read 24008380 spots for SRR12116984/SRR12116984.sra Written 24008380 spots for SRR12116984/SRR12116984.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: 00:11:23 24008380 reads; of these: 24008380 (100.00%) were paired; of these: 4264883 (17.76%) aligned concordantly 0 times 17430074 (72.60%) aligned concordantly exactly 1 time 2313423 (9.64%) aligned concordantly >1 times ---- 4264883 pairs aligned concordantly 0 times; of these: 260801 (6.12%) aligned discordantly 1 time ---- 4004082 pairs aligned 0 times concordantly or discordantly; of these: 8008164 mates make up the pairs; of these: 7782589 (97.18%) aligned 0 times 134791 (1.68%) aligned exactly 1 time 90784 (1.13%) aligned >1 times 83.79% overall alignment rate Time searching: 00:11:23 Overall time: 00:11:23 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] 358348 / 19975304 = 0.0179 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 16:05:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.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 16:05:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:02: 1000000 INFO @ Wed, 22 Jul 2020 16:06:07: 2000000 INFO @ Wed, 22 Jul 2020 16:06:13: 3000000 INFO @ Wed, 22 Jul 2020 16:06:19: 4000000 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 16:06:24: 5000000 INFO @ Wed, 22 Jul 2020 16:06:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.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 16:06:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:31: 6000000 INFO @ Wed, 22 Jul 2020 16:06:33: 1000000 INFO @ Wed, 22 Jul 2020 16:06:37: 7000000 INFO @ Wed, 22 Jul 2020 16:06:39: 2000000 INFO @ Wed, 22 Jul 2020 16:06:43: 8000000 INFO @ Wed, 22 Jul 2020 16:06:47: 3000000 INFO @ Wed, 22 Jul 2020 16:06:50: 9000000 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 16:06:55: 4000000 INFO @ Wed, 22 Jul 2020 16:06:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.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 16:06:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:56: 10000000 INFO @ Wed, 22 Jul 2020 16:07:02: 11000000 INFO @ Wed, 22 Jul 2020 16:07:02: 1000000 INFO @ Wed, 22 Jul 2020 16:07:04: 5000000 INFO @ Wed, 22 Jul 2020 16:07:09: 12000000 INFO @ Wed, 22 Jul 2020 16:07:09: 2000000 INFO @ Wed, 22 Jul 2020 16:07:12: 6000000 INFO @ Wed, 22 Jul 2020 16:07:15: 13000000 INFO @ Wed, 22 Jul 2020 16:07:15: 3000000 INFO @ Wed, 22 Jul 2020 16:07:20: 7000000 INFO @ Wed, 22 Jul 2020 16:07:21: 14000000 INFO @ Wed, 22 Jul 2020 16:07:22: 4000000 INFO @ Wed, 22 Jul 2020 16:07:27: 15000000 INFO @ Wed, 22 Jul 2020 16:07:27: 8000000 INFO @ Wed, 22 Jul 2020 16:07:28: 5000000 INFO @ Wed, 22 Jul 2020 16:07:33: 16000000 INFO @ Wed, 22 Jul 2020 16:07:34: 6000000 INFO @ Wed, 22 Jul 2020 16:07:35: 9000000 INFO @ Wed, 22 Jul 2020 16:07:39: 17000000 INFO @ Wed, 22 Jul 2020 16:07:40: 7000000 INFO @ Wed, 22 Jul 2020 16:07:43: 10000000 INFO @ Wed, 22 Jul 2020 16:07:46: 18000000 INFO @ Wed, 22 Jul 2020 16:07:46: 8000000 INFO @ Wed, 22 Jul 2020 16:07:51: 11000000 INFO @ Wed, 22 Jul 2020 16:07:52: 19000000 INFO @ Wed, 22 Jul 2020 16:07:53: 9000000 INFO @ Wed, 22 Jul 2020 16:07:58: 20000000 INFO @ Wed, 22 Jul 2020 16:07:59: 10000000 INFO @ Wed, 22 Jul 2020 16:07:59: 12000000 INFO @ Wed, 22 Jul 2020 16:08:04: 21000000 INFO @ Wed, 22 Jul 2020 16:08:05: 11000000 INFO @ Wed, 22 Jul 2020 16:08:07: 13000000 INFO @ Wed, 22 Jul 2020 16:08:10: 22000000 INFO @ Wed, 22 Jul 2020 16:08:11: 12000000 INFO @ Wed, 22 Jul 2020 16:08:15: 14000000 INFO @ Wed, 22 Jul 2020 16:08:16: 23000000 INFO @ Wed, 22 Jul 2020 16:08:17: 13000000 INFO @ Wed, 22 Jul 2020 16:08:22: 24000000 INFO @ Wed, 22 Jul 2020 16:08:23: 15000000 INFO @ Wed, 22 Jul 2020 16:08:24: 14000000 INFO @ Wed, 22 Jul 2020 16:08:28: 25000000 INFO @ Wed, 22 Jul 2020 16:08:30: 15000000 INFO @ Wed, 22 Jul 2020 16:08:31: 16000000 INFO @ Wed, 22 Jul 2020 16:08:34: 26000000 INFO @ Wed, 22 Jul 2020 16:08:36: 16000000 INFO @ Wed, 22 Jul 2020 16:08:39: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:08:40: 27000000 INFO @ Wed, 22 Jul 2020 16:08:42: 17000000 INFO @ Wed, 22 Jul 2020 16:08:46: 28000000 INFO @ Wed, 22 Jul 2020 16:08:47: 18000000 INFO @ Wed, 22 Jul 2020 16:08:48: 18000000 INFO @ Wed, 22 Jul 2020 16:08:53: 29000000 INFO @ Wed, 22 Jul 2020 16:08:55: 19000000 INFO @ Wed, 22 Jul 2020 16:08:55: 19000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:08:59: 30000000 INFO @ Wed, 22 Jul 2020 16:09:02: 20000000 INFO @ Wed, 22 Jul 2020 16:09:03: 20000000 INFO @ Wed, 22 Jul 2020 16:09:05: 31000000 INFO @ Wed, 22 Jul 2020 16:09:08: 21000000 INFO @ Wed, 22 Jul 2020 16:09:11: 21000000 INFO @ Wed, 22 Jul 2020 16:09:11: 32000000 INFO @ Wed, 22 Jul 2020 16:09:14: 22000000 INFO @ Wed, 22 Jul 2020 16:09:17: 33000000 INFO @ Wed, 22 Jul 2020 16:09:19: 22000000 INFO @ Wed, 22 Jul 2020 16:09:20: 23000000 INFO @ Wed, 22 Jul 2020 16:09:23: 34000000 INFO @ Wed, 22 Jul 2020 16:09:26: 23000000 INFO @ Wed, 22 Jul 2020 16:09:27: 24000000 INFO @ Wed, 22 Jul 2020 16:09:30: 35000000 INFO @ Wed, 22 Jul 2020 16:09:32: 24000000 INFO @ Wed, 22 Jul 2020 16:09:33: 25000000 INFO @ Wed, 22 Jul 2020 16:09:36: 36000000 INFO @ Wed, 22 Jul 2020 16:09:39: 25000000 INFO @ Wed, 22 Jul 2020 16:09:39: 26000000 INFO @ Wed, 22 Jul 2020 16:09:42: 37000000 INFO @ Wed, 22 Jul 2020 16:09:45: 26000000 INFO @ Wed, 22 Jul 2020 16:09:45: 27000000 INFO @ Wed, 22 Jul 2020 16:09:48: 38000000 INFO @ Wed, 22 Jul 2020 16:09:51: 27000000 INFO @ Wed, 22 Jul 2020 16:09:52: 28000000 INFO @ Wed, 22 Jul 2020 16:09:54: 39000000 INFO @ Wed, 22 Jul 2020 16:09:57: 28000000 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: 19385419 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 16:09:58: #1 tags after filtering in treatment: 12536127 INFO @ Wed, 22 Jul 2020 16:09:58: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:09:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:58: 29000000 INFO @ Wed, 22 Jul 2020 16:09:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:59: 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 16:09:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.05_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/SRX8639546/SRX8639546.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:03: 29000000 INFO @ Wed, 22 Jul 2020 16:10:04: 30000000 INFO @ Wed, 22 Jul 2020 16:10:10: 30000000 INFO @ Wed, 22 Jul 2020 16:10:11: 31000000 INFO @ Wed, 22 Jul 2020 16:10:16: 31000000 INFO @ Wed, 22 Jul 2020 16:10:17: 32000000 INFO @ Wed, 22 Jul 2020 16:10:22: 32000000 INFO @ Wed, 22 Jul 2020 16:10:23: 33000000 INFO @ Wed, 22 Jul 2020 16:10:28: 33000000 INFO @ Wed, 22 Jul 2020 16:10:30: 34000000 INFO @ Wed, 22 Jul 2020 16:10:35: 34000000 INFO @ Wed, 22 Jul 2020 16:10:36: 35000000 INFO @ Wed, 22 Jul 2020 16:10:41: 35000000 INFO @ Wed, 22 Jul 2020 16:10:42: 36000000 INFO @ Wed, 22 Jul 2020 16:10:47: 36000000 INFO @ Wed, 22 Jul 2020 16:10:49: 37000000 INFO @ Wed, 22 Jul 2020 16:10:53: 37000000 INFO @ Wed, 22 Jul 2020 16:10:55: 38000000 INFO @ Wed, 22 Jul 2020 16:11:00: 38000000 INFO @ Wed, 22 Jul 2020 16:11:01: 39000000 INFO @ Wed, 22 Jul 2020 16:11:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:11:05: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:11:05: #1 total tags in treatment: 19385419 INFO @ Wed, 22 Jul 2020 16:11:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:11:05: #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 16:11:05: #1 tags after filtering in treatment: 12536127 INFO @ Wed, 22 Jul 2020 16:11:05: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:11:05: #1 finished! INFO @ Wed, 22 Jul 2020 16:11:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:11:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:11:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:11:06: 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 16:11:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.20_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/SRX8639546/SRX8639546.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:11:06: 39000000 INFO @ Wed, 22 Jul 2020 16:11:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:11:09: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:11:09: #1 total tags in treatment: 19385419 INFO @ Wed, 22 Jul 2020 16:11:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:11:09: #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 16:11:10: #1 tags after filtering in treatment: 12536127 INFO @ Wed, 22 Jul 2020 16:11:10: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:11:10: #1 finished! INFO @ Wed, 22 Jul 2020 16:11:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:11:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:11:10: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:11:10: 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 16:11:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.10_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/SRX8639546/SRX8639546.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639546/SRX8639546.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling