Job ID = 14520915 SRX = SRX8245321 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15300008 spots for SRR11684516/SRR11684516.sra Written 15300008 spots for SRR11684516/SRR11684516.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: 00:06:41 15300008 reads; of these: 15300008 (100.00%) were paired; of these: 9601967 (62.76%) aligned concordantly 0 times 4962805 (32.44%) aligned concordantly exactly 1 time 735236 (4.81%) aligned concordantly >1 times ---- 9601967 pairs aligned concordantly 0 times; of these: 140226 (1.46%) aligned discordantly 1 time ---- 9461741 pairs aligned 0 times concordantly or discordantly; of these: 18923482 mates make up the pairs; of these: 9938606 (52.52%) aligned 0 times 7733450 (40.87%) aligned exactly 1 time 1251426 (6.61%) aligned >1 times 67.52% overall alignment rate Time searching: 00:06:41 Overall time: 00:06:41 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] 177294 / 5837698 = 0.0304 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 20:26:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.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 20:26:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:26:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:26:18: 1000000 INFO @ Sat, 15 Jan 2022 20:26:23: 2000000 INFO @ Sat, 15 Jan 2022 20:26:27: 3000000 INFO @ Sat, 15 Jan 2022 20:26:32: 4000000 INFO @ Sat, 15 Jan 2022 20:26:36: 5000000 INFO @ Sat, 15 Jan 2022 20:26:40: 6000000 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 20:26:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.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 20:26:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:26:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:26:45: 7000000 INFO @ Sat, 15 Jan 2022 20:26:47: 1000000 INFO @ Sat, 15 Jan 2022 20:26:50: 8000000 INFO @ Sat, 15 Jan 2022 20:26:52: 2000000 INFO @ Sat, 15 Jan 2022 20:26:55: 9000000 INFO @ Sat, 15 Jan 2022 20:26:57: 3000000 INFO @ Sat, 15 Jan 2022 20:27:01: 10000000 INFO @ Sat, 15 Jan 2022 20:27:02: 4000000 INFO @ Sat, 15 Jan 2022 20:27:06: 11000000 INFO @ Sat, 15 Jan 2022 20:27:07: 5000000 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 20:27:12: 12000000 INFO @ Sat, 15 Jan 2022 20:27:12: 6000000 INFO @ Sat, 15 Jan 2022 20:27:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.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 20:27:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:27:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:27:18: 7000000 INFO @ Sat, 15 Jan 2022 20:27:18: 13000000 INFO @ Sat, 15 Jan 2022 20:27:18: 1000000 INFO @ Sat, 15 Jan 2022 20:27:23: 8000000 INFO @ Sat, 15 Jan 2022 20:27:23: 2000000 INFO @ Sat, 15 Jan 2022 20:27:23: 14000000 INFO @ Sat, 15 Jan 2022 20:27:28: 9000000 INFO @ Sat, 15 Jan 2022 20:27:28: 3000000 INFO @ Sat, 15 Jan 2022 20:27:29: 15000000 INFO @ Sat, 15 Jan 2022 20:27:33: 10000000 INFO @ Sat, 15 Jan 2022 20:27:33: 4000000 INFO @ Sat, 15 Jan 2022 20:27:35: 16000000 INFO @ Sat, 15 Jan 2022 20:27:38: 11000000 INFO @ Sat, 15 Jan 2022 20:27:38: 5000000 INFO @ Sat, 15 Jan 2022 20:27:41: 17000000 INFO @ Sat, 15 Jan 2022 20:27:43: 12000000 INFO @ Sat, 15 Jan 2022 20:27:44: 6000000 INFO @ Sat, 15 Jan 2022 20:27:47: 18000000 INFO @ Sat, 15 Jan 2022 20:27:48: 13000000 INFO @ Sat, 15 Jan 2022 20:27:49: 7000000 INFO @ Sat, 15 Jan 2022 20:27:52: 19000000 INFO @ Sat, 15 Jan 2022 20:27:53: 14000000 INFO @ Sat, 15 Jan 2022 20:27:54: 8000000 INFO @ Sat, 15 Jan 2022 20:27:58: 20000000 INFO @ Sat, 15 Jan 2022 20:27:58: 15000000 INFO @ Sat, 15 Jan 2022 20:27:59: 9000000 INFO @ Sat, 15 Jan 2022 20:28:00: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 20:28:00: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 20:28:00: #1 total tags in treatment: 5522348 INFO @ Sat, 15 Jan 2022 20:28:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:00: #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 20:28:00: #1 tags after filtering in treatment: 4442761 INFO @ Sat, 15 Jan 2022 20:28:00: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 20:28:00: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:00: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 20:28:00: Too few paired peaks (25) 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 20:28:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:28:03: 16000000 INFO @ Sat, 15 Jan 2022 20:28:04: 10000000 INFO @ Sat, 15 Jan 2022 20:28:08: 17000000 INFO @ Sat, 15 Jan 2022 20:28:09: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:28:13: 18000000 INFO @ Sat, 15 Jan 2022 20:28:14: 12000000 INFO @ Sat, 15 Jan 2022 20:28:18: 19000000 INFO @ Sat, 15 Jan 2022 20:28:19: 13000000 INFO @ Sat, 15 Jan 2022 20:28:23: 20000000 INFO @ Sat, 15 Jan 2022 20:28:24: 14000000 INFO @ Sat, 15 Jan 2022 20:28:25: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 20:28:25: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 20:28:25: #1 total tags in treatment: 5522348 INFO @ Sat, 15 Jan 2022 20:28:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:28:25: #1 tags after filtering in treatment: 4442761 INFO @ Sat, 15 Jan 2022 20:28:25: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 20:28:25: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:25: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 20:28:25: Too few paired peaks (25) 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 20:28:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.10_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/SRX8245321/SRX8245321.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:28:29: 15000000 INFO @ Sat, 15 Jan 2022 20:28:33: 16000000 INFO @ Sat, 15 Jan 2022 20:28:38: 17000000 INFO @ Sat, 15 Jan 2022 20:28:43: 18000000 INFO @ Sat, 15 Jan 2022 20:28:47: 19000000 INFO @ Sat, 15 Jan 2022 20:28:52: 20000000 INFO @ Sat, 15 Jan 2022 20:28:53: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 20:28:53: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 20:28:53: #1 total tags in treatment: 5522348 INFO @ Sat, 15 Jan 2022 20:28:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:53: #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 20:28:54: #1 tags after filtering in treatment: 4442761 INFO @ Sat, 15 Jan 2022 20:28:54: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 15 Jan 2022 20:28:54: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:54: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 20:28:54: Too few paired peaks (25) 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 20:28:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.20_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/SRX8245321/SRX8245321.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245321/SRX8245321.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling