Job ID = 7115865 SRX = SRX8639464 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:13:12 prefetch.2.10.7: 1) Downloading 'SRR12117036'... 2020-07-22T06:13:12 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:15:42 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:15:42 prefetch.2.10.7: 1) 'SRR12117036' was downloaded successfully 2020-07-22T06:15:42 prefetch.2.10.7: 'SRR12117036' has 0 unresolved dependencies Read 23505801 spots for SRR12117036/SRR12117036.sra Written 23505801 spots for SRR12117036/SRR12117036.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: 00:09:52 23505801 reads; of these: 23505801 (100.00%) were paired; of these: 5109514 (21.74%) aligned concordantly 0 times 16304871 (69.37%) aligned concordantly exactly 1 time 2091416 (8.90%) aligned concordantly >1 times ---- 5109514 pairs aligned concordantly 0 times; of these: 114700 (2.24%) aligned discordantly 1 time ---- 4994814 pairs aligned 0 times concordantly or discordantly; of these: 9989628 mates make up the pairs; of these: 9700038 (97.10%) aligned 0 times 218590 (2.19%) aligned exactly 1 time 71000 (0.71%) aligned >1 times 79.37% overall alignment rate Time searching: 00:09:52 Overall time: 00:09:52 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] 328069 / 18481522 = 0.0178 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 15:35:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.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 15:35:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:07: 1000000 INFO @ Wed, 22 Jul 2020 15:35:11: 2000000 INFO @ Wed, 22 Jul 2020 15:35:16: 3000000 INFO @ Wed, 22 Jul 2020 15:35:21: 4000000 INFO @ Wed, 22 Jul 2020 15:35:26: 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 15:35:31: 6000000 INFO @ Wed, 22 Jul 2020 15:35:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.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 15:35:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:36: 7000000 INFO @ Wed, 22 Jul 2020 15:35:37: 1000000 INFO @ Wed, 22 Jul 2020 15:35:41: 8000000 INFO @ Wed, 22 Jul 2020 15:35:42: 2000000 INFO @ Wed, 22 Jul 2020 15:35:47: 9000000 INFO @ Wed, 22 Jul 2020 15:35:47: 3000000 INFO @ Wed, 22 Jul 2020 15:35:52: 10000000 INFO @ Wed, 22 Jul 2020 15:35:53: 4000000 INFO @ Wed, 22 Jul 2020 15:35:57: 11000000 INFO @ Wed, 22 Jul 2020 15:35:58: 5000000 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 15:36:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.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 15:36:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:02: 12000000 INFO @ Wed, 22 Jul 2020 15:36:03: 6000000 INFO @ Wed, 22 Jul 2020 15:36:08: 13000000 INFO @ Wed, 22 Jul 2020 15:36:08: 1000000 INFO @ Wed, 22 Jul 2020 15:36:08: 7000000 INFO @ Wed, 22 Jul 2020 15:36:13: 14000000 INFO @ Wed, 22 Jul 2020 15:36:13: 8000000 INFO @ Wed, 22 Jul 2020 15:36:13: 2000000 INFO @ Wed, 22 Jul 2020 15:36:18: 15000000 INFO @ Wed, 22 Jul 2020 15:36:18: 9000000 INFO @ Wed, 22 Jul 2020 15:36:18: 3000000 INFO @ Wed, 22 Jul 2020 15:36:23: 16000000 INFO @ Wed, 22 Jul 2020 15:36:23: 10000000 INFO @ Wed, 22 Jul 2020 15:36:24: 4000000 INFO @ Wed, 22 Jul 2020 15:36:28: 17000000 INFO @ Wed, 22 Jul 2020 15:36:29: 11000000 INFO @ Wed, 22 Jul 2020 15:36:29: 5000000 INFO @ Wed, 22 Jul 2020 15:36:33: 18000000 INFO @ Wed, 22 Jul 2020 15:36:34: 12000000 INFO @ Wed, 22 Jul 2020 15:36:34: 6000000 INFO @ Wed, 22 Jul 2020 15:36:38: 19000000 INFO @ Wed, 22 Jul 2020 15:36:39: 13000000 INFO @ Wed, 22 Jul 2020 15:36:40: 7000000 INFO @ Wed, 22 Jul 2020 15:36:44: 20000000 INFO @ Wed, 22 Jul 2020 15:36:44: 14000000 INFO @ Wed, 22 Jul 2020 15:36:45: 8000000 INFO @ Wed, 22 Jul 2020 15:36:49: 21000000 INFO @ Wed, 22 Jul 2020 15:36:50: 15000000 INFO @ Wed, 22 Jul 2020 15:36:50: 9000000 INFO @ Wed, 22 Jul 2020 15:36:54: 22000000 INFO @ Wed, 22 Jul 2020 15:36:55: 16000000 INFO @ Wed, 22 Jul 2020 15:36:55: 10000000 INFO @ Wed, 22 Jul 2020 15:36:59: 23000000 INFO @ Wed, 22 Jul 2020 15:37:00: 17000000 INFO @ Wed, 22 Jul 2020 15:37:00: 11000000 INFO @ Wed, 22 Jul 2020 15:37:04: 24000000 INFO @ Wed, 22 Jul 2020 15:37:05: 18000000 INFO @ Wed, 22 Jul 2020 15:37:05: 12000000 INFO @ Wed, 22 Jul 2020 15:37:09: 25000000 INFO @ Wed, 22 Jul 2020 15:37:10: 19000000 INFO @ Wed, 22 Jul 2020 15:37:10: 13000000 INFO @ Wed, 22 Jul 2020 15:37:14: 26000000 INFO @ Wed, 22 Jul 2020 15:37:15: 20000000 INFO @ Wed, 22 Jul 2020 15:37:15: 14000000 INFO @ Wed, 22 Jul 2020 15:37:20: 27000000 INFO @ Wed, 22 Jul 2020 15:37:20: 21000000 INFO @ Wed, 22 Jul 2020 15:37:20: 15000000 INFO @ Wed, 22 Jul 2020 15:37:25: 28000000 INFO @ Wed, 22 Jul 2020 15:37:25: 22000000 INFO @ Wed, 22 Jul 2020 15:37:26: 16000000 INFO @ Wed, 22 Jul 2020 15:37:30: 29000000 INFO @ Wed, 22 Jul 2020 15:37:30: 23000000 INFO @ Wed, 22 Jul 2020 15:37:31: 17000000 INFO @ Wed, 22 Jul 2020 15:37:35: 30000000 INFO @ Wed, 22 Jul 2020 15:37:35: 24000000 INFO @ Wed, 22 Jul 2020 15:37:37: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:37:40: 31000000 INFO @ Wed, 22 Jul 2020 15:37:41: 25000000 INFO @ Wed, 22 Jul 2020 15:37:42: 19000000 INFO @ Wed, 22 Jul 2020 15:37:46: 32000000 INFO @ Wed, 22 Jul 2020 15:37:46: 26000000 INFO @ Wed, 22 Jul 2020 15:37:48: 20000000 INFO @ Wed, 22 Jul 2020 15:37:51: 33000000 INFO @ Wed, 22 Jul 2020 15:37:51: 27000000 INFO @ Wed, 22 Jul 2020 15:37:53: 21000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:37:56: 34000000 INFO @ Wed, 22 Jul 2020 15:37:56: 28000000 INFO @ Wed, 22 Jul 2020 15:37:58: 22000000 INFO @ Wed, 22 Jul 2020 15:38:01: 35000000 INFO @ Wed, 22 Jul 2020 15:38:01: 29000000 INFO @ Wed, 22 Jul 2020 15:38:03: 23000000 INFO @ Wed, 22 Jul 2020 15:38:06: 30000000 INFO @ Wed, 22 Jul 2020 15:38:07: 36000000 INFO @ Wed, 22 Jul 2020 15:38:08: 24000000 INFO @ Wed, 22 Jul 2020 15:38:10: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:10: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:10: #1 total tags in treatment: 18068365 INFO @ Wed, 22 Jul 2020 15:38:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:10: #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 15:38:10: #1 tags after filtering in treatment: 11973619 INFO @ Wed, 22 Jul 2020 15:38:10: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:38:10: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:11: 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 15:38:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.05_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/SRX8639464/SRX8639464.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:11: 31000000 INFO @ Wed, 22 Jul 2020 15:38:13: 25000000 INFO @ Wed, 22 Jul 2020 15:38:16: 32000000 INFO @ Wed, 22 Jul 2020 15:38:18: 26000000 INFO @ Wed, 22 Jul 2020 15:38:21: 33000000 INFO @ Wed, 22 Jul 2020 15:38:23: 27000000 INFO @ Wed, 22 Jul 2020 15:38:26: 34000000 INFO @ Wed, 22 Jul 2020 15:38:28: 28000000 INFO @ Wed, 22 Jul 2020 15:38:31: 35000000 INFO @ Wed, 22 Jul 2020 15:38:33: 29000000 INFO @ Wed, 22 Jul 2020 15:38:37: 36000000 INFO @ Wed, 22 Jul 2020 15:38:38: 30000000 INFO @ Wed, 22 Jul 2020 15:38:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:40: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:40: #1 total tags in treatment: 18068365 INFO @ Wed, 22 Jul 2020 15:38:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:40: #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 15:38:40: #1 tags after filtering in treatment: 11973619 INFO @ Wed, 22 Jul 2020 15:38:40: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:38:40: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:41: 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 15:38:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.10_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/SRX8639464/SRX8639464.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:43: 31000000 INFO @ Wed, 22 Jul 2020 15:38:48: 32000000 INFO @ Wed, 22 Jul 2020 15:38:52: 33000000 INFO @ Wed, 22 Jul 2020 15:38:57: 34000000 INFO @ Wed, 22 Jul 2020 15:39:02: 35000000 INFO @ Wed, 22 Jul 2020 15:39:07: 36000000 INFO @ Wed, 22 Jul 2020 15:39:10: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:10: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:10: #1 total tags in treatment: 18068365 INFO @ Wed, 22 Jul 2020 15:39:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:10: #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 15:39:11: #1 tags after filtering in treatment: 11973619 INFO @ Wed, 22 Jul 2020 15:39:11: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:39:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:11: 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 15:39:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.20_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/SRX8639464/SRX8639464.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639464/SRX8639464.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling