Job ID = 7118181 SRX = SRX8639580 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:11:25 prefetch.2.10.7: 1) Downloading 'SRR12117018'... 2020-07-22T07:11:25 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:14:23 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:14:23 prefetch.2.10.7: 1) 'SRR12117018' was downloaded successfully 2020-07-22T07:14:23 prefetch.2.10.7: 'SRR12117018' has 0 unresolved dependencies Read 30421315 spots for SRR12117018/SRR12117018.sra Written 30421315 spots for SRR12117018/SRR12117018.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: 00:09:31 30421315 reads; of these: 30421315 (100.00%) were paired; of these: 17238822 (56.67%) aligned concordantly 0 times 11768252 (38.68%) aligned concordantly exactly 1 time 1414241 (4.65%) aligned concordantly >1 times ---- 17238822 pairs aligned concordantly 0 times; of these: 135156 (0.78%) aligned discordantly 1 time ---- 17103666 pairs aligned 0 times concordantly or discordantly; of these: 34207332 mates make up the pairs; of these: 33970093 (99.31%) aligned 0 times 175700 (0.51%) aligned exactly 1 time 61539 (0.18%) aligned >1 times 44.17% overall alignment rate Time searching: 00:09:31 Overall time: 00:09:31 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 12 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] 181454 / 13304348 = 0.0136 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 16:31:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.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 16:31:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:31:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:31:53: 1000000 INFO @ Wed, 22 Jul 2020 16:31:57: 2000000 INFO @ Wed, 22 Jul 2020 16:32:01: 3000000 INFO @ Wed, 22 Jul 2020 16:32:06: 4000000 INFO @ Wed, 22 Jul 2020 16:32:10: 5000000 INFO @ Wed, 22 Jul 2020 16:32:15: 6000000 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 16:32:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.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 16:32:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:32:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:32:19: 7000000 INFO @ Wed, 22 Jul 2020 16:32:24: 8000000 INFO @ Wed, 22 Jul 2020 16:32:24: 1000000 INFO @ Wed, 22 Jul 2020 16:32:28: 9000000 INFO @ Wed, 22 Jul 2020 16:32:29: 2000000 INFO @ Wed, 22 Jul 2020 16:32:33: 10000000 INFO @ Wed, 22 Jul 2020 16:32:34: 3000000 INFO @ Wed, 22 Jul 2020 16:32:38: 11000000 INFO @ Wed, 22 Jul 2020 16:32:39: 4000000 INFO @ Wed, 22 Jul 2020 16:32:43: 12000000 INFO @ Wed, 22 Jul 2020 16:32:44: 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 16:32:47: 13000000 INFO @ Wed, 22 Jul 2020 16:32:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.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 16:32:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:32:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:32:50: 6000000 INFO @ Wed, 22 Jul 2020 16:32:52: 14000000 INFO @ Wed, 22 Jul 2020 16:32:54: 1000000 INFO @ Wed, 22 Jul 2020 16:32:55: 7000000 INFO @ Wed, 22 Jul 2020 16:32:56: 15000000 INFO @ Wed, 22 Jul 2020 16:33:00: 2000000 INFO @ Wed, 22 Jul 2020 16:33:01: 8000000 INFO @ Wed, 22 Jul 2020 16:33:01: 16000000 INFO @ Wed, 22 Jul 2020 16:33:06: 3000000 INFO @ Wed, 22 Jul 2020 16:33:06: 17000000 INFO @ Wed, 22 Jul 2020 16:33:07: 9000000 INFO @ Wed, 22 Jul 2020 16:33:10: 18000000 INFO @ Wed, 22 Jul 2020 16:33:11: 4000000 INFO @ Wed, 22 Jul 2020 16:33:12: 10000000 INFO @ Wed, 22 Jul 2020 16:33:15: 19000000 INFO @ Wed, 22 Jul 2020 16:33:16: 5000000 INFO @ Wed, 22 Jul 2020 16:33:18: 11000000 INFO @ Wed, 22 Jul 2020 16:33:20: 20000000 INFO @ Wed, 22 Jul 2020 16:33:21: 6000000 INFO @ Wed, 22 Jul 2020 16:33:23: 12000000 INFO @ Wed, 22 Jul 2020 16:33:25: 21000000 INFO @ Wed, 22 Jul 2020 16:33:27: 7000000 INFO @ Wed, 22 Jul 2020 16:33:29: 13000000 INFO @ Wed, 22 Jul 2020 16:33:29: 22000000 INFO @ Wed, 22 Jul 2020 16:33:32: 8000000 INFO @ Wed, 22 Jul 2020 16:33:34: 23000000 INFO @ Wed, 22 Jul 2020 16:33:34: 14000000 INFO @ Wed, 22 Jul 2020 16:33:37: 9000000 INFO @ Wed, 22 Jul 2020 16:33:38: 24000000 INFO @ Wed, 22 Jul 2020 16:33:40: 15000000 INFO @ Wed, 22 Jul 2020 16:33:42: 10000000 INFO @ Wed, 22 Jul 2020 16:33:43: 25000000 INFO @ Wed, 22 Jul 2020 16:33:45: 16000000 INFO @ Wed, 22 Jul 2020 16:33:47: 11000000 INFO @ Wed, 22 Jul 2020 16:33:48: 26000000 INFO @ Wed, 22 Jul 2020 16:33:50: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:33:50: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:33:50: #1 total tags in treatment: 13001289 INFO @ Wed, 22 Jul 2020 16:33:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:33:50: #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 16:33:50: 17000000 INFO @ Wed, 22 Jul 2020 16:33:50: #1 tags after filtering in treatment: 8012347 INFO @ Wed, 22 Jul 2020 16:33:50: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 16:33:50: #1 finished! INFO @ Wed, 22 Jul 2020 16:33:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:33:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:33:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:33:51: 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 16:33:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.05_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/SRX8639580/SRX8639580.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:33:53: 12000000 INFO @ Wed, 22 Jul 2020 16:33:56: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:33:58: 13000000 INFO @ Wed, 22 Jul 2020 16:34:01: 19000000 INFO @ Wed, 22 Jul 2020 16:34:03: 14000000 INFO @ Wed, 22 Jul 2020 16:34:07: 20000000 INFO @ Wed, 22 Jul 2020 16:34:08: 15000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:34:11: 21000000 INFO @ Wed, 22 Jul 2020 16:34:13: 16000000 INFO @ Wed, 22 Jul 2020 16:34:16: 22000000 INFO @ Wed, 22 Jul 2020 16:34:18: 17000000 INFO @ Wed, 22 Jul 2020 16:34:21: 23000000 INFO @ Wed, 22 Jul 2020 16:34:23: 18000000 INFO @ Wed, 22 Jul 2020 16:34:25: 24000000 INFO @ Wed, 22 Jul 2020 16:34:29: 19000000 INFO @ Wed, 22 Jul 2020 16:34:30: 25000000 INFO @ Wed, 22 Jul 2020 16:34:34: 20000000 INFO @ Wed, 22 Jul 2020 16:34:35: 26000000 INFO @ Wed, 22 Jul 2020 16:34:38: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:34:38: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:34:38: #1 total tags in treatment: 13001289 INFO @ Wed, 22 Jul 2020 16:34:38: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:34:38: #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 16:34:38: #1 tags after filtering in treatment: 8012347 INFO @ Wed, 22 Jul 2020 16:34:38: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 16:34:38: #1 finished! INFO @ Wed, 22 Jul 2020 16:34:38: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:34:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:34:39: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:34:39: 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 16:34:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.10_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/SRX8639580/SRX8639580.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:34:39: 21000000 INFO @ Wed, 22 Jul 2020 16:34:44: 22000000 INFO @ Wed, 22 Jul 2020 16:34:49: 23000000 INFO @ Wed, 22 Jul 2020 16:34:54: 24000000 INFO @ Wed, 22 Jul 2020 16:34:59: 25000000 INFO @ Wed, 22 Jul 2020 16:35:04: 26000000 INFO @ Wed, 22 Jul 2020 16:35:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:35:06: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:35:06: #1 total tags in treatment: 13001289 INFO @ Wed, 22 Jul 2020 16:35:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:06: #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 16:35:07: #1 tags after filtering in treatment: 8012347 INFO @ Wed, 22 Jul 2020 16:35:07: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 16:35:07: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:07: 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 16:35:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.20_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/SRX8639580/SRX8639580.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639580/SRX8639580.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling