Job ID = 7115822 SRX = SRX8639462 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:12:57 prefetch.2.10.7: 1) Downloading 'SRR12117034'... 2020-07-22T06:12:57 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:14:46 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:14:46 prefetch.2.10.7: 1) 'SRR12117034' was downloaded successfully 2020-07-22T06:14:46 prefetch.2.10.7: 'SRR12117034' has 0 unresolved dependencies Read 24372478 spots for SRR12117034/SRR12117034.sra Written 24372478 spots for SRR12117034/SRR12117034.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: 00:11:50 24372478 reads; of these: 24372478 (100.00%) were paired; of these: 4459218 (18.30%) aligned concordantly 0 times 17686061 (72.57%) aligned concordantly exactly 1 time 2227199 (9.14%) aligned concordantly >1 times ---- 4459218 pairs aligned concordantly 0 times; of these: 186454 (4.18%) aligned discordantly 1 time ---- 4272764 pairs aligned 0 times concordantly or discordantly; of these: 8545528 mates make up the pairs; of these: 8278456 (96.87%) aligned 0 times 186772 (2.19%) aligned exactly 1 time 80300 (0.94%) aligned >1 times 83.02% overall alignment rate Time searching: 00:11:50 Overall time: 00:11:50 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] 323381 / 20063708 = 0.0161 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 15:37:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.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 15:37:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:16: 1000000 INFO @ Wed, 22 Jul 2020 15:37:21: 2000000 INFO @ Wed, 22 Jul 2020 15:37:27: 3000000 INFO @ Wed, 22 Jul 2020 15:37:33: 4000000 INFO @ Wed, 22 Jul 2020 15:37:38: 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 15:37:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.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 15:37:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:44: 6000000 INFO @ Wed, 22 Jul 2020 15:37:46: 1000000 INFO @ Wed, 22 Jul 2020 15:37:49: 7000000 INFO @ Wed, 22 Jul 2020 15:37:52: 2000000 INFO @ Wed, 22 Jul 2020 15:37:55: 8000000 INFO @ Wed, 22 Jul 2020 15:37:59: 3000000 INFO @ Wed, 22 Jul 2020 15:38:01: 9000000 INFO @ Wed, 22 Jul 2020 15:38:05: 4000000 INFO @ Wed, 22 Jul 2020 15:38:06: 10000000 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 15:38:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.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 15:38:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:38:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:38:11: 5000000 INFO @ Wed, 22 Jul 2020 15:38:12: 11000000 INFO @ Wed, 22 Jul 2020 15:38:17: 1000000 INFO @ Wed, 22 Jul 2020 15:38:17: 6000000 INFO @ Wed, 22 Jul 2020 15:38:18: 12000000 INFO @ Wed, 22 Jul 2020 15:38:23: 7000000 INFO @ Wed, 22 Jul 2020 15:38:23: 2000000 INFO @ Wed, 22 Jul 2020 15:38:24: 13000000 INFO @ Wed, 22 Jul 2020 15:38:29: 8000000 INFO @ Wed, 22 Jul 2020 15:38:30: 3000000 INFO @ Wed, 22 Jul 2020 15:38:30: 14000000 INFO @ Wed, 22 Jul 2020 15:38:35: 9000000 INFO @ Wed, 22 Jul 2020 15:38:36: 15000000 INFO @ Wed, 22 Jul 2020 15:38:37: 4000000 INFO @ Wed, 22 Jul 2020 15:38:41: 10000000 INFO @ Wed, 22 Jul 2020 15:38:42: 16000000 INFO @ Wed, 22 Jul 2020 15:38:43: 5000000 INFO @ Wed, 22 Jul 2020 15:38:47: 11000000 INFO @ Wed, 22 Jul 2020 15:38:48: 17000000 INFO @ Wed, 22 Jul 2020 15:38:49: 6000000 INFO @ Wed, 22 Jul 2020 15:38:53: 12000000 INFO @ Wed, 22 Jul 2020 15:38:53: 18000000 INFO @ Wed, 22 Jul 2020 15:38:55: 7000000 INFO @ Wed, 22 Jul 2020 15:38:59: 13000000 INFO @ Wed, 22 Jul 2020 15:38:59: 19000000 INFO @ Wed, 22 Jul 2020 15:39:00: 8000000 INFO @ Wed, 22 Jul 2020 15:39:04: 14000000 INFO @ Wed, 22 Jul 2020 15:39:05: 20000000 INFO @ Wed, 22 Jul 2020 15:39:06: 9000000 INFO @ Wed, 22 Jul 2020 15:39:10: 15000000 INFO @ Wed, 22 Jul 2020 15:39:11: 21000000 INFO @ Wed, 22 Jul 2020 15:39:12: 10000000 INFO @ Wed, 22 Jul 2020 15:39:16: 16000000 INFO @ Wed, 22 Jul 2020 15:39:17: 22000000 INFO @ Wed, 22 Jul 2020 15:39:18: 11000000 INFO @ Wed, 22 Jul 2020 15:39:22: 17000000 INFO @ Wed, 22 Jul 2020 15:39:23: 23000000 INFO @ Wed, 22 Jul 2020 15:39:24: 12000000 INFO @ Wed, 22 Jul 2020 15:39:27: 18000000 INFO @ Wed, 22 Jul 2020 15:39:28: 24000000 INFO @ Wed, 22 Jul 2020 15:39:30: 13000000 INFO @ Wed, 22 Jul 2020 15:39:33: 19000000 INFO @ Wed, 22 Jul 2020 15:39:34: 25000000 INFO @ Wed, 22 Jul 2020 15:39:35: 14000000 INFO @ Wed, 22 Jul 2020 15:39:39: 20000000 INFO @ Wed, 22 Jul 2020 15:39:40: 26000000 INFO @ Wed, 22 Jul 2020 15:39:41: 15000000 INFO @ Wed, 22 Jul 2020 15:39:45: 21000000 INFO @ Wed, 22 Jul 2020 15:39:46: 27000000 INFO @ Wed, 22 Jul 2020 15:39:47: 16000000 INFO @ Wed, 22 Jul 2020 15:39:50: 22000000 INFO @ Wed, 22 Jul 2020 15:39:51: 28000000 INFO @ Wed, 22 Jul 2020 15:39:52: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:39:56: 23000000 INFO @ Wed, 22 Jul 2020 15:39:57: 29000000 INFO @ Wed, 22 Jul 2020 15:39:58: 18000000 INFO @ Wed, 22 Jul 2020 15:40:02: 24000000 INFO @ Wed, 22 Jul 2020 15:40:03: 30000000 INFO @ Wed, 22 Jul 2020 15:40:04: 19000000 INFO @ Wed, 22 Jul 2020 15:40:07: 25000000 INFO @ Wed, 22 Jul 2020 15:40:08: 31000000 INFO @ Wed, 22 Jul 2020 15:40:10: 20000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:40:13: 26000000 INFO @ Wed, 22 Jul 2020 15:40:14: 32000000 INFO @ Wed, 22 Jul 2020 15:40:15: 21000000 INFO @ Wed, 22 Jul 2020 15:40:19: 27000000 INFO @ Wed, 22 Jul 2020 15:40:20: 33000000 INFO @ Wed, 22 Jul 2020 15:40:21: 22000000 INFO @ Wed, 22 Jul 2020 15:40:24: 28000000 INFO @ Wed, 22 Jul 2020 15:40:25: 34000000 INFO @ Wed, 22 Jul 2020 15:40:27: 23000000 INFO @ Wed, 22 Jul 2020 15:40:30: 29000000 INFO @ Wed, 22 Jul 2020 15:40:31: 35000000 INFO @ Wed, 22 Jul 2020 15:40:32: 24000000 INFO @ Wed, 22 Jul 2020 15:40:36: 30000000 INFO @ Wed, 22 Jul 2020 15:40:37: 36000000 INFO @ Wed, 22 Jul 2020 15:40:38: 25000000 INFO @ Wed, 22 Jul 2020 15:40:41: 31000000 INFO @ Wed, 22 Jul 2020 15:40:43: 37000000 INFO @ Wed, 22 Jul 2020 15:40:44: 26000000 INFO @ Wed, 22 Jul 2020 15:40:47: 32000000 INFO @ Wed, 22 Jul 2020 15:40:48: 38000000 INFO @ Wed, 22 Jul 2020 15:40:50: 27000000 INFO @ Wed, 22 Jul 2020 15:40:53: 33000000 INFO @ Wed, 22 Jul 2020 15:40:54: 39000000 INFO @ Wed, 22 Jul 2020 15:40:55: 28000000 INFO @ Wed, 22 Jul 2020 15:40:58: 34000000 INFO @ Wed, 22 Jul 2020 15:40:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:40:59: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:40:59: #1 total tags in treatment: 19590157 INFO @ Wed, 22 Jul 2020 15:40:59: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:40:59: #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 15:40:59: #1 tags after filtering in treatment: 12596718 INFO @ Wed, 22 Jul 2020 15:40:59: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 15:40:59: #1 finished! INFO @ Wed, 22 Jul 2020 15:40:59: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:40:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:41:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:41:00: 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 15:41:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:41:01: 29000000 INFO @ Wed, 22 Jul 2020 15:41:04: 35000000 INFO @ Wed, 22 Jul 2020 15:41:06: 30000000 INFO @ Wed, 22 Jul 2020 15:41:10: 36000000 INFO @ Wed, 22 Jul 2020 15:41:12: 31000000 INFO @ Wed, 22 Jul 2020 15:41:15: 37000000 INFO @ Wed, 22 Jul 2020 15:41:18: 32000000 INFO @ Wed, 22 Jul 2020 15:41:21: 38000000 INFO @ Wed, 22 Jul 2020 15:41:23: 33000000 INFO @ Wed, 22 Jul 2020 15:41:26: 39000000 INFO @ Wed, 22 Jul 2020 15:41:29: 34000000 INFO @ Wed, 22 Jul 2020 15:41:31: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:41:31: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:41:31: #1 total tags in treatment: 19590157 INFO @ Wed, 22 Jul 2020 15:41:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:41:31: #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 15:41:31: #1 tags after filtering in treatment: 12596718 INFO @ Wed, 22 Jul 2020 15:41:31: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 15:41:31: #1 finished! INFO @ Wed, 22 Jul 2020 15:41:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:41:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:41:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:41:32: 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 15:41:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.10_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/SRX8639462/SRX8639462.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:41:34: 35000000 INFO @ Wed, 22 Jul 2020 15:41:39: 36000000 INFO @ Wed, 22 Jul 2020 15:41:44: 37000000 INFO @ Wed, 22 Jul 2020 15:41:49: 38000000 INFO @ Wed, 22 Jul 2020 15:41:54: 39000000 INFO @ Wed, 22 Jul 2020 15:41:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:41:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:41:58: #1 total tags in treatment: 19590157 INFO @ Wed, 22 Jul 2020 15:41:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:41:58: #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 15:41:59: #1 tags after filtering in treatment: 12596718 INFO @ Wed, 22 Jul 2020 15:41:59: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 15:41:59: #1 finished! INFO @ Wed, 22 Jul 2020 15:41:59: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:41:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:41:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:41:59: 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 15:41:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.20_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/SRX8639462/SRX8639462.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639462/SRX8639462.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling