Job ID = 7116360 SRX = SRX8639474 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:15:28 prefetch.2.10.7: 1) Downloading 'SRR12117038'... 2020-07-22T06:15:28 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:17:53 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:17:53 prefetch.2.10.7: 1) 'SRR12117038' was downloaded successfully 2020-07-22T06:17:53 prefetch.2.10.7: 'SRR12117038' has 0 unresolved dependencies Read 23978089 spots for SRR12117038/SRR12117038.sra Written 23978089 spots for SRR12117038/SRR12117038.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: 00:12:13 23978089 reads; of these: 23978089 (100.00%) were paired; of these: 5486193 (22.88%) aligned concordantly 0 times 16395837 (68.38%) aligned concordantly exactly 1 time 2096059 (8.74%) aligned concordantly >1 times ---- 5486193 pairs aligned concordantly 0 times; of these: 103506 (1.89%) aligned discordantly 1 time ---- 5382687 pairs aligned 0 times concordantly or discordantly; of these: 10765374 mates make up the pairs; of these: 10538819 (97.90%) aligned 0 times 169087 (1.57%) aligned exactly 1 time 57468 (0.53%) aligned >1 times 78.02% overall alignment rate Time searching: 00:12:13 Overall time: 00:12:13 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] 340774 / 18576554 = 0.0183 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 15:40:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.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 15:40:09: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:09: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:15: 1000000 INFO @ Wed, 22 Jul 2020 15:40:21: 2000000 INFO @ Wed, 22 Jul 2020 15:40:26: 3000000 INFO @ Wed, 22 Jul 2020 15:40:32: 4000000 INFO @ Wed, 22 Jul 2020 15:40:37: 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 15:40:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.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 15:40:39: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:39: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:43: 6000000 INFO @ Wed, 22 Jul 2020 15:40:46: 1000000 INFO @ Wed, 22 Jul 2020 15:40:50: 7000000 INFO @ Wed, 22 Jul 2020 15:40:52: 2000000 INFO @ Wed, 22 Jul 2020 15:40:56: 8000000 INFO @ Wed, 22 Jul 2020 15:40:58: 3000000 INFO @ Wed, 22 Jul 2020 15:41:02: 9000000 INFO @ Wed, 22 Jul 2020 15:41:05: 4000000 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 15:41:09: 10000000 INFO @ Wed, 22 Jul 2020 15:41:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.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 15:41:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:41:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:41:11: 5000000 INFO @ Wed, 22 Jul 2020 15:41:15: 11000000 INFO @ Wed, 22 Jul 2020 15:41:16: 1000000 INFO @ Wed, 22 Jul 2020 15:41:17: 6000000 INFO @ Wed, 22 Jul 2020 15:41:22: 12000000 INFO @ Wed, 22 Jul 2020 15:41:22: 2000000 INFO @ Wed, 22 Jul 2020 15:41:24: 7000000 INFO @ Wed, 22 Jul 2020 15:41:29: 3000000 INFO @ Wed, 22 Jul 2020 15:41:29: 13000000 INFO @ Wed, 22 Jul 2020 15:41:30: 8000000 INFO @ Wed, 22 Jul 2020 15:41:35: 4000000 INFO @ Wed, 22 Jul 2020 15:41:35: 14000000 INFO @ Wed, 22 Jul 2020 15:41:36: 9000000 INFO @ Wed, 22 Jul 2020 15:41:41: 5000000 INFO @ Wed, 22 Jul 2020 15:41:42: 15000000 INFO @ Wed, 22 Jul 2020 15:41:43: 10000000 INFO @ Wed, 22 Jul 2020 15:41:47: 6000000 INFO @ Wed, 22 Jul 2020 15:41:48: 16000000 INFO @ Wed, 22 Jul 2020 15:41:49: 11000000 INFO @ Wed, 22 Jul 2020 15:41:54: 7000000 INFO @ Wed, 22 Jul 2020 15:41:55: 17000000 INFO @ Wed, 22 Jul 2020 15:41:55: 12000000 INFO @ Wed, 22 Jul 2020 15:42:00: 8000000 INFO @ Wed, 22 Jul 2020 15:42:01: 18000000 INFO @ Wed, 22 Jul 2020 15:42:02: 13000000 INFO @ Wed, 22 Jul 2020 15:42:06: 9000000 INFO @ Wed, 22 Jul 2020 15:42:07: 19000000 INFO @ Wed, 22 Jul 2020 15:42:09: 14000000 INFO @ Wed, 22 Jul 2020 15:42:13: 10000000 INFO @ Wed, 22 Jul 2020 15:42:14: 20000000 INFO @ Wed, 22 Jul 2020 15:42:16: 15000000 INFO @ Wed, 22 Jul 2020 15:42:19: 11000000 INFO @ Wed, 22 Jul 2020 15:42:20: 21000000 INFO @ Wed, 22 Jul 2020 15:42:22: 16000000 INFO @ Wed, 22 Jul 2020 15:42:26: 12000000 INFO @ Wed, 22 Jul 2020 15:42:27: 22000000 INFO @ Wed, 22 Jul 2020 15:42:28: 17000000 INFO @ Wed, 22 Jul 2020 15:42:33: 23000000 INFO @ Wed, 22 Jul 2020 15:42:33: 13000000 INFO @ Wed, 22 Jul 2020 15:42:35: 18000000 INFO @ Wed, 22 Jul 2020 15:42:39: 24000000 INFO @ Wed, 22 Jul 2020 15:42:39: 14000000 INFO @ Wed, 22 Jul 2020 15:42:41: 19000000 INFO @ Wed, 22 Jul 2020 15:42:46: 25000000 INFO @ Wed, 22 Jul 2020 15:42:46: 15000000 INFO @ Wed, 22 Jul 2020 15:42:47: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:42:52: 26000000 INFO @ Wed, 22 Jul 2020 15:42:52: 16000000 INFO @ Wed, 22 Jul 2020 15:42:54: 21000000 INFO @ Wed, 22 Jul 2020 15:42:58: 27000000 INFO @ Wed, 22 Jul 2020 15:42:59: 17000000 INFO @ Wed, 22 Jul 2020 15:43:00: 22000000 INFO @ Wed, 22 Jul 2020 15:43:05: 28000000 INFO @ Wed, 22 Jul 2020 15:43:05: 18000000 INFO @ Wed, 22 Jul 2020 15:43:07: 23000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:43:11: 29000000 INFO @ Wed, 22 Jul 2020 15:43:12: 19000000 INFO @ Wed, 22 Jul 2020 15:43:13: 24000000 INFO @ Wed, 22 Jul 2020 15:43:17: 30000000 INFO @ Wed, 22 Jul 2020 15:43:18: 20000000 INFO @ Wed, 22 Jul 2020 15:43:19: 25000000 INFO @ Wed, 22 Jul 2020 15:43:24: 31000000 INFO @ Wed, 22 Jul 2020 15:43:24: 21000000 INFO @ Wed, 22 Jul 2020 15:43:26: 26000000 INFO @ Wed, 22 Jul 2020 15:43:30: 32000000 INFO @ Wed, 22 Jul 2020 15:43:31: 22000000 INFO @ Wed, 22 Jul 2020 15:43:32: 27000000 INFO @ Wed, 22 Jul 2020 15:43:37: 33000000 INFO @ Wed, 22 Jul 2020 15:43:37: 23000000 INFO @ Wed, 22 Jul 2020 15:43:39: 28000000 INFO @ Wed, 22 Jul 2020 15:43:43: 34000000 INFO @ Wed, 22 Jul 2020 15:43:44: 24000000 INFO @ Wed, 22 Jul 2020 15:43:45: 29000000 INFO @ Wed, 22 Jul 2020 15:43:49: 35000000 INFO @ Wed, 22 Jul 2020 15:43:50: 25000000 INFO @ Wed, 22 Jul 2020 15:43:51: 30000000 INFO @ Wed, 22 Jul 2020 15:43:56: 36000000 INFO @ Wed, 22 Jul 2020 15:43:57: 26000000 INFO @ Wed, 22 Jul 2020 15:43:58: 31000000 INFO @ Wed, 22 Jul 2020 15:44:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:00: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:00: #1 total tags in treatment: 18151232 INFO @ Wed, 22 Jul 2020 15:44:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:00: #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 15:44:01: #1 tags after filtering in treatment: 11979408 INFO @ Wed, 22 Jul 2020 15:44:01: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:44:01: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:01: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:02: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:02: 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 15:44:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.05_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/SRX8639474/SRX8639474.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:44:03: 27000000 INFO @ Wed, 22 Jul 2020 15:44:04: 32000000 INFO @ Wed, 22 Jul 2020 15:44:09: 28000000 INFO @ Wed, 22 Jul 2020 15:44:10: 33000000 INFO @ Wed, 22 Jul 2020 15:44:16: 29000000 INFO @ Wed, 22 Jul 2020 15:44:17: 34000000 INFO @ Wed, 22 Jul 2020 15:44:22: 30000000 INFO @ Wed, 22 Jul 2020 15:44:23: 35000000 INFO @ Wed, 22 Jul 2020 15:44:28: 31000000 INFO @ Wed, 22 Jul 2020 15:44:29: 36000000 INFO @ Wed, 22 Jul 2020 15:44:34: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:34: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:34: #1 total tags in treatment: 18151232 INFO @ Wed, 22 Jul 2020 15:44:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:34: #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 15:44:34: #1 tags after filtering in treatment: 11979408 INFO @ Wed, 22 Jul 2020 15:44:34: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:44:34: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:35: 32000000 INFO @ Wed, 22 Jul 2020 15:44:35: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:35: 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 15:44:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.10_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/SRX8639474/SRX8639474.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:44:40: 33000000 INFO @ Wed, 22 Jul 2020 15:44:46: 34000000 INFO @ Wed, 22 Jul 2020 15:44:52: 35000000 INFO @ Wed, 22 Jul 2020 15:44:57: 36000000 INFO @ Wed, 22 Jul 2020 15:45:02: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:45:02: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:45:02: #1 total tags in treatment: 18151232 INFO @ Wed, 22 Jul 2020 15:45:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:45:02: #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 15:45:02: #1 tags after filtering in treatment: 11979408 INFO @ Wed, 22 Jul 2020 15:45:02: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:45:02: #1 finished! INFO @ Wed, 22 Jul 2020 15:45:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:45:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:45:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:45:03: 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 15:45:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.20_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/SRX8639474/SRX8639474.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639474/SRX8639474.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling