Job ID = 14520485 SRX = SRX11781049 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:13:08 prefetch.2.10.7: 1) Downloading 'SRR15480992'... 2022-01-15T10:13:08 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:13:47 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:13:47 prefetch.2.10.7: 1) 'SRR15480992' was downloaded successfully 2022-01-15T10:13:47 prefetch.2.10.7: 'SRR15480992' has 0 unresolved dependencies Read 8963402 spots for SRR15480992/SRR15480992.sra Written 8963402 spots for SRR15480992/SRR15480992.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: 00:10:41 8963402 reads; of these: 8963402 (100.00%) were paired; of these: 1467897 (16.38%) aligned concordantly 0 times 5330701 (59.47%) aligned concordantly exactly 1 time 2164804 (24.15%) aligned concordantly >1 times ---- 1467897 pairs aligned concordantly 0 times; of these: 196976 (13.42%) aligned discordantly 1 time ---- 1270921 pairs aligned 0 times concordantly or discordantly; of these: 2541842 mates make up the pairs; of these: 1904294 (74.92%) aligned 0 times 406292 (15.98%) aligned exactly 1 time 231256 (9.10%) aligned >1 times 89.38% overall alignment rate Time searching: 00:10:41 Overall time: 00:10:41 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 8 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] 693785 / 7638909 = 0.0908 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:32:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.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 @ Sat, 15 Jan 2022 19:32:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:41: 1000000 INFO @ Sat, 15 Jan 2022 19:32:48: 2000000 INFO @ Sat, 15 Jan 2022 19:32:56: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:33:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.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 @ Sat, 15 Jan 2022 19:33:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:03: 4000000 INFO @ Sat, 15 Jan 2022 19:33:10: 5000000 INFO @ Sat, 15 Jan 2022 19:33:11: 1000000 INFO @ Sat, 15 Jan 2022 19:33:18: 6000000 INFO @ Sat, 15 Jan 2022 19:33:19: 2000000 INFO @ Sat, 15 Jan 2022 19:33:26: 7000000 INFO @ Sat, 15 Jan 2022 19:33:27: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:33:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.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 @ Sat, 15 Jan 2022 19:33:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:34: 8000000 INFO @ Sat, 15 Jan 2022 19:33:36: 4000000 INFO @ Sat, 15 Jan 2022 19:33:41: 9000000 INFO @ Sat, 15 Jan 2022 19:33:42: 1000000 INFO @ Sat, 15 Jan 2022 19:33:45: 5000000 INFO @ Sat, 15 Jan 2022 19:33:49: 10000000 INFO @ Sat, 15 Jan 2022 19:33:51: 2000000 INFO @ Sat, 15 Jan 2022 19:33:54: 6000000 INFO @ Sat, 15 Jan 2022 19:33:56: 11000000 INFO @ Sat, 15 Jan 2022 19:34:00: 3000000 INFO @ Sat, 15 Jan 2022 19:34:03: 7000000 INFO @ Sat, 15 Jan 2022 19:34:04: 12000000 INFO @ Sat, 15 Jan 2022 19:34:10: 4000000 INFO @ Sat, 15 Jan 2022 19:34:12: 8000000 INFO @ Sat, 15 Jan 2022 19:34:13: 13000000 INFO @ Sat, 15 Jan 2022 19:34:19: 5000000 INFO @ Sat, 15 Jan 2022 19:34:21: 14000000 INFO @ Sat, 15 Jan 2022 19:34:21: 9000000 INFO @ Sat, 15 Jan 2022 19:34:26: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:26: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:26: #1 total tags in treatment: 6810339 INFO @ Sat, 15 Jan 2022 19:34:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:34:26: #1 tags after filtering in treatment: 4506346 INFO @ Sat, 15 Jan 2022 19:34:26: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 19:34:26: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:26: #2 number of paired peaks: 67 WARNING @ Sat, 15 Jan 2022 19:34:26: Too few paired peaks (67) 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 @ Sat, 15 Jan 2022 19:34:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.05_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/SRX11781049/SRX11781049.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:34:27: 6000000 INFO @ Sat, 15 Jan 2022 19:34:30: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:34:36: 7000000 INFO @ Sat, 15 Jan 2022 19:34:39: 11000000 INFO @ Sat, 15 Jan 2022 19:34:46: 8000000 INFO @ Sat, 15 Jan 2022 19:34:48: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:34:55: 9000000 INFO @ Sat, 15 Jan 2022 19:34:57: 13000000 INFO @ Sat, 15 Jan 2022 19:35:03: 10000000 INFO @ Sat, 15 Jan 2022 19:35:06: 14000000 INFO @ Sat, 15 Jan 2022 19:35:12: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:35:12: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:35:12: #1 total tags in treatment: 6810339 INFO @ Sat, 15 Jan 2022 19:35:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:35:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:35:12: #1 tags after filtering in treatment: 4506346 INFO @ Sat, 15 Jan 2022 19:35:12: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 19:35:12: #1 finished! INFO @ Sat, 15 Jan 2022 19:35:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:35:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:35:12: #2 number of paired peaks: 67 WARNING @ Sat, 15 Jan 2022 19:35:12: Too few paired peaks (67) 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 @ Sat, 15 Jan 2022 19:35:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis INFO @ Sat, 15 Jan 2022 19:35:13: 11000000 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:35:21: 12000000 INFO @ Sat, 15 Jan 2022 19:35:30: 13000000 INFO @ Sat, 15 Jan 2022 19:35:39: 14000000 INFO @ Sat, 15 Jan 2022 19:35:44: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:35:44: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:35:44: #1 total tags in treatment: 6810339 INFO @ Sat, 15 Jan 2022 19:35:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:35:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:35:44: #1 tags after filtering in treatment: 4506346 INFO @ Sat, 15 Jan 2022 19:35:44: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 19:35:44: #1 finished! INFO @ Sat, 15 Jan 2022 19:35:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:35:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:35:44: #2 number of paired peaks: 67 WARNING @ Sat, 15 Jan 2022 19:35:44: Too few paired peaks (67) 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 @ Sat, 15 Jan 2022 19:35:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.20_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/SRX11781049/SRX11781049.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781049/SRX11781049.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling