Job ID = 7117361 SRX = SRX8639501 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:37:40 prefetch.2.10.7: 1) Downloading 'SRR12117065'... 2020-07-22T06:37:40 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:42:52 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:42:52 prefetch.2.10.7: 1) 'SRR12117065' was downloaded successfully 2020-07-22T06:42:52 prefetch.2.10.7: 'SRR12117065' has 0 unresolved dependencies Read 30044494 spots for SRR12117065/SRR12117065.sra Written 30044494 spots for SRR12117065/SRR12117065.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: 00:15:43 30044494 reads; of these: 30044494 (100.00%) were paired; of these: 3932667 (13.09%) aligned concordantly 0 times 22683577 (75.50%) aligned concordantly exactly 1 time 3428250 (11.41%) aligned concordantly >1 times ---- 3932667 pairs aligned concordantly 0 times; of these: 385958 (9.81%) aligned discordantly 1 time ---- 3546709 pairs aligned 0 times concordantly or discordantly; of these: 7093418 mates make up the pairs; of these: 6532780 (92.10%) aligned 0 times 368956 (5.20%) aligned exactly 1 time 191682 (2.70%) aligned >1 times 89.13% overall alignment rate Time searching: 00:15:43 Overall time: 00:15:43 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 24 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] 739294 / 26340303 = 0.0281 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 16:12:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.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 16:12:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:12:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:12:08: 1000000 INFO @ Wed, 22 Jul 2020 16:12:14: 2000000 INFO @ Wed, 22 Jul 2020 16:12:21: 3000000 INFO @ Wed, 22 Jul 2020 16:12:28: 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 16:12:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.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 16:12:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:12:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:12:35: 5000000 INFO @ Wed, 22 Jul 2020 16:12:39: 1000000 INFO @ Wed, 22 Jul 2020 16:12:43: 6000000 INFO @ Wed, 22 Jul 2020 16:12:46: 2000000 INFO @ Wed, 22 Jul 2020 16:12:51: 7000000 INFO @ Wed, 22 Jul 2020 16:12:54: 3000000 INFO @ Wed, 22 Jul 2020 16:12:59: 8000000 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 16:13:01: 4000000 INFO @ Wed, 22 Jul 2020 16:13:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.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 16:13:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:13:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:13:07: 9000000 INFO @ Wed, 22 Jul 2020 16:13:08: 5000000 INFO @ Wed, 22 Jul 2020 16:13:09: 1000000 INFO @ Wed, 22 Jul 2020 16:13:15: 6000000 INFO @ Wed, 22 Jul 2020 16:13:16: 10000000 INFO @ Wed, 22 Jul 2020 16:13:17: 2000000 INFO @ Wed, 22 Jul 2020 16:13:23: 7000000 INFO @ Wed, 22 Jul 2020 16:13:24: 11000000 INFO @ Wed, 22 Jul 2020 16:13:25: 3000000 INFO @ Wed, 22 Jul 2020 16:13:30: 8000000 INFO @ Wed, 22 Jul 2020 16:13:32: 12000000 INFO @ Wed, 22 Jul 2020 16:13:33: 4000000 INFO @ Wed, 22 Jul 2020 16:13:38: 9000000 INFO @ Wed, 22 Jul 2020 16:13:40: 13000000 INFO @ Wed, 22 Jul 2020 16:13:41: 5000000 INFO @ Wed, 22 Jul 2020 16:13:45: 10000000 INFO @ Wed, 22 Jul 2020 16:13:48: 14000000 INFO @ Wed, 22 Jul 2020 16:13:49: 6000000 INFO @ Wed, 22 Jul 2020 16:13:53: 11000000 INFO @ Wed, 22 Jul 2020 16:13:56: 15000000 INFO @ Wed, 22 Jul 2020 16:13:57: 7000000 INFO @ Wed, 22 Jul 2020 16:14:00: 12000000 INFO @ Wed, 22 Jul 2020 16:14:04: 16000000 INFO @ Wed, 22 Jul 2020 16:14:05: 8000000 INFO @ Wed, 22 Jul 2020 16:14:08: 13000000 INFO @ Wed, 22 Jul 2020 16:14:13: 17000000 INFO @ Wed, 22 Jul 2020 16:14:13: 9000000 INFO @ Wed, 22 Jul 2020 16:14:15: 14000000 INFO @ Wed, 22 Jul 2020 16:14:21: 18000000 INFO @ Wed, 22 Jul 2020 16:14:21: 10000000 INFO @ Wed, 22 Jul 2020 16:14:23: 15000000 INFO @ Wed, 22 Jul 2020 16:14:29: 19000000 INFO @ Wed, 22 Jul 2020 16:14:29: 11000000 INFO @ Wed, 22 Jul 2020 16:14:30: 16000000 INFO @ Wed, 22 Jul 2020 16:14:37: 20000000 INFO @ Wed, 22 Jul 2020 16:14:37: 17000000 INFO @ Wed, 22 Jul 2020 16:14:37: 12000000 INFO @ Wed, 22 Jul 2020 16:14:45: 18000000 INFO @ Wed, 22 Jul 2020 16:14:45: 21000000 INFO @ Wed, 22 Jul 2020 16:14:46: 13000000 INFO @ Wed, 22 Jul 2020 16:14:52: 19000000 INFO @ Wed, 22 Jul 2020 16:14:54: 22000000 INFO @ Wed, 22 Jul 2020 16:14:54: 14000000 INFO @ Wed, 22 Jul 2020 16:15:00: 20000000 INFO @ Wed, 22 Jul 2020 16:15:02: 23000000 INFO @ Wed, 22 Jul 2020 16:15:02: 15000000 INFO @ Wed, 22 Jul 2020 16:15:08: 21000000 INFO @ Wed, 22 Jul 2020 16:15:10: 24000000 INFO @ Wed, 22 Jul 2020 16:15:11: 16000000 INFO @ Wed, 22 Jul 2020 16:15:15: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:15:19: 25000000 INFO @ Wed, 22 Jul 2020 16:15:19: 17000000 INFO @ Wed, 22 Jul 2020 16:15:23: 23000000 INFO @ Wed, 22 Jul 2020 16:15:27: 26000000 INFO @ Wed, 22 Jul 2020 16:15:27: 18000000 INFO @ Wed, 22 Jul 2020 16:15:30: 24000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:15:35: 27000000 INFO @ Wed, 22 Jul 2020 16:15:35: 19000000 INFO @ Wed, 22 Jul 2020 16:15:38: 25000000 INFO @ Wed, 22 Jul 2020 16:15:42: 28000000 INFO @ Wed, 22 Jul 2020 16:15:43: 20000000 INFO @ Wed, 22 Jul 2020 16:15:46: 26000000 INFO @ Wed, 22 Jul 2020 16:15:50: 29000000 INFO @ Wed, 22 Jul 2020 16:15:52: 21000000 INFO @ Wed, 22 Jul 2020 16:15:53: 27000000 INFO @ Wed, 22 Jul 2020 16:15:58: 30000000 INFO @ Wed, 22 Jul 2020 16:16:00: 22000000 INFO @ Wed, 22 Jul 2020 16:16:01: 28000000 INFO @ Wed, 22 Jul 2020 16:16:06: 31000000 INFO @ Wed, 22 Jul 2020 16:16:08: 23000000 INFO @ Wed, 22 Jul 2020 16:16:08: 29000000 INFO @ Wed, 22 Jul 2020 16:16:14: 32000000 INFO @ Wed, 22 Jul 2020 16:16:15: 30000000 INFO @ Wed, 22 Jul 2020 16:16:15: 24000000 INFO @ Wed, 22 Jul 2020 16:16:22: 33000000 INFO @ Wed, 22 Jul 2020 16:16:23: 31000000 INFO @ Wed, 22 Jul 2020 16:16:23: 25000000 INFO @ Wed, 22 Jul 2020 16:16:30: 34000000 INFO @ Wed, 22 Jul 2020 16:16:30: 32000000 INFO @ Wed, 22 Jul 2020 16:16:31: 26000000 INFO @ Wed, 22 Jul 2020 16:16:37: 35000000 INFO @ Wed, 22 Jul 2020 16:16:38: 33000000 INFO @ Wed, 22 Jul 2020 16:16:38: 27000000 INFO @ Wed, 22 Jul 2020 16:16:45: 34000000 INFO @ Wed, 22 Jul 2020 16:16:45: 36000000 INFO @ Wed, 22 Jul 2020 16:16:46: 28000000 INFO @ Wed, 22 Jul 2020 16:16:52: 35000000 INFO @ Wed, 22 Jul 2020 16:16:53: 37000000 INFO @ Wed, 22 Jul 2020 16:16:54: 29000000 INFO @ Wed, 22 Jul 2020 16:17:00: 36000000 INFO @ Wed, 22 Jul 2020 16:17:01: 38000000 INFO @ Wed, 22 Jul 2020 16:17:01: 30000000 INFO @ Wed, 22 Jul 2020 16:17:07: 37000000 INFO @ Wed, 22 Jul 2020 16:17:09: 39000000 INFO @ Wed, 22 Jul 2020 16:17:09: 31000000 INFO @ Wed, 22 Jul 2020 16:17:14: 38000000 INFO @ Wed, 22 Jul 2020 16:17:16: 40000000 INFO @ Wed, 22 Jul 2020 16:17:17: 32000000 INFO @ Wed, 22 Jul 2020 16:17:22: 39000000 INFO @ Wed, 22 Jul 2020 16:17:24: 41000000 INFO @ Wed, 22 Jul 2020 16:17:25: 33000000 INFO @ Wed, 22 Jul 2020 16:17:29: 40000000 INFO @ Wed, 22 Jul 2020 16:17:32: 42000000 INFO @ Wed, 22 Jul 2020 16:17:33: 34000000 INFO @ Wed, 22 Jul 2020 16:17:36: 41000000 INFO @ Wed, 22 Jul 2020 16:17:40: 43000000 INFO @ Wed, 22 Jul 2020 16:17:41: 35000000 INFO @ Wed, 22 Jul 2020 16:17:44: 42000000 INFO @ Wed, 22 Jul 2020 16:17:48: 44000000 INFO @ Wed, 22 Jul 2020 16:17:49: 36000000 INFO @ Wed, 22 Jul 2020 16:17:51: 43000000 INFO @ Wed, 22 Jul 2020 16:17:55: 45000000 INFO @ Wed, 22 Jul 2020 16:17:57: 37000000 INFO @ Wed, 22 Jul 2020 16:17:58: 44000000 INFO @ Wed, 22 Jul 2020 16:18:03: 46000000 INFO @ Wed, 22 Jul 2020 16:18:05: 38000000 INFO @ Wed, 22 Jul 2020 16:18:05: 45000000 INFO @ Wed, 22 Jul 2020 16:18:11: 47000000 INFO @ Wed, 22 Jul 2020 16:18:12: 46000000 INFO @ Wed, 22 Jul 2020 16:18:13: 39000000 INFO @ Wed, 22 Jul 2020 16:18:18: 48000000 INFO @ Wed, 22 Jul 2020 16:18:20: 47000000 INFO @ Wed, 22 Jul 2020 16:18:21: 40000000 INFO @ Wed, 22 Jul 2020 16:18:26: 49000000 INFO @ Wed, 22 Jul 2020 16:18:27: 48000000 INFO @ Wed, 22 Jul 2020 16:18:29: 41000000 INFO @ Wed, 22 Jul 2020 16:18:34: 50000000 INFO @ Wed, 22 Jul 2020 16:18:34: 49000000 INFO @ Wed, 22 Jul 2020 16:18:37: 42000000 INFO @ Wed, 22 Jul 2020 16:18:41: 50000000 INFO @ Wed, 22 Jul 2020 16:18:42: 51000000 INFO @ Wed, 22 Jul 2020 16:18:45: 43000000 INFO @ Wed, 22 Jul 2020 16:18:48: 51000000 INFO @ Wed, 22 Jul 2020 16:18:50: 52000000 INFO @ Wed, 22 Jul 2020 16:18:50: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:18:50: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:18:50: #1 total tags in treatment: 25373450 INFO @ Wed, 22 Jul 2020 16:18:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:18:50: #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 16:18:51: #1 tags after filtering in treatment: 14619838 INFO @ Wed, 22 Jul 2020 16:18:51: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Jul 2020 16:18:51: #1 finished! INFO @ Wed, 22 Jul 2020 16:18:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:18:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:18:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:18:52: 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 16:18:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.05_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/SRX8639501/SRX8639501.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:18:53: 44000000 INFO @ Wed, 22 Jul 2020 16:18:55: 52000000 INFO @ Wed, 22 Jul 2020 16:18:56: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:18:56: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:18:56: #1 total tags in treatment: 25373450 INFO @ Wed, 22 Jul 2020 16:18:56: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:18:56: #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 16:18:56: #1 tags after filtering in treatment: 14619838 INFO @ Wed, 22 Jul 2020 16:18:56: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Jul 2020 16:18:56: #1 finished! INFO @ Wed, 22 Jul 2020 16:18:56: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:18:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:18:57: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:18:57: 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 16:18:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.10_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/SRX8639501/SRX8639501.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:19:01: 45000000 INFO @ Wed, 22 Jul 2020 16:19:08: 46000000 INFO @ Wed, 22 Jul 2020 16:19:15: 47000000 INFO @ Wed, 22 Jul 2020 16:19:21: 48000000 INFO @ Wed, 22 Jul 2020 16:19:28: 49000000 INFO @ Wed, 22 Jul 2020 16:19:35: 50000000 INFO @ Wed, 22 Jul 2020 16:19:42: 51000000 INFO @ Wed, 22 Jul 2020 16:19:48: 52000000 INFO @ Wed, 22 Jul 2020 16:19:49: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:19:49: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:19:49: #1 total tags in treatment: 25373450 INFO @ Wed, 22 Jul 2020 16:19:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:19:49: #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 16:19:49: #1 tags after filtering in treatment: 14619838 INFO @ Wed, 22 Jul 2020 16:19:49: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Jul 2020 16:19:49: #1 finished! INFO @ Wed, 22 Jul 2020 16:19:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:19:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:19:50: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:19:50: 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 16:19:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.20_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/SRX8639501/SRX8639501.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639501/SRX8639501.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling