Job ID = 12531621 SRX = SRX4555006 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 20228815 spots for SRR7696693/SRR7696693.sra Written 20228815 spots for SRR7696693/SRR7696693.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: 00:24:04 20228815 reads; of these: 20228815 (100.00%) were paired; of these: 1162505 (5.75%) aligned concordantly 0 times 9221923 (45.59%) aligned concordantly exactly 1 time 9844387 (48.67%) aligned concordantly >1 times ---- 1162505 pairs aligned concordantly 0 times; of these: 78931 (6.79%) aligned discordantly 1 time ---- 1083574 pairs aligned 0 times concordantly or discordantly; of these: 2167148 mates make up the pairs; of these: 1658704 (76.54%) aligned 0 times 278425 (12.85%) aligned exactly 1 time 230019 (10.61%) aligned >1 times 95.90% overall alignment rate Time searching: 00:24:04 Overall time: 00:24:04 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 28 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] 4217906 / 9086920 = 0.4642 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:18:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.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, 17 Apr 2021 09:18:03: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:18:03: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:18:10: 1000000 INFO @ Sat, 17 Apr 2021 09:18:20: 2000000 INFO @ Sat, 17 Apr 2021 09:18:31: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:18:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.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, 17 Apr 2021 09:18:33: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:18:33: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:18:42: 4000000 INFO @ Sat, 17 Apr 2021 09:18:45: 1000000 INFO @ Sat, 17 Apr 2021 09:18:53: 5000000 INFO @ Sat, 17 Apr 2021 09:18:56: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:19:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.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, 17 Apr 2021 09:19:03: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:19:03: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:19:04: 6000000 INFO @ Sat, 17 Apr 2021 09:19:07: 3000000 INFO @ Sat, 17 Apr 2021 09:19:10: 1000000 INFO @ Sat, 17 Apr 2021 09:19:14: 7000000 INFO @ Sat, 17 Apr 2021 09:19:17: 2000000 INFO @ Sat, 17 Apr 2021 09:19:18: 4000000 INFO @ Sat, 17 Apr 2021 09:19:21: 8000000 INFO @ Sat, 17 Apr 2021 09:19:24: 3000000 INFO @ Sat, 17 Apr 2021 09:19:28: 5000000 INFO @ Sat, 17 Apr 2021 09:19:28: 9000000 INFO @ Sat, 17 Apr 2021 09:19:31: 4000000 INFO @ Sat, 17 Apr 2021 09:19:35: 10000000 INFO @ Sat, 17 Apr 2021 09:19:38: 5000000 INFO @ Sat, 17 Apr 2021 09:19:39: 6000000 INFO @ Sat, 17 Apr 2021 09:19:42: 11000000 INFO @ Sat, 17 Apr 2021 09:19:46: 6000000 INFO @ Sat, 17 Apr 2021 09:19:49: 12000000 INFO @ Sat, 17 Apr 2021 09:19:50: 7000000 INFO @ Sat, 17 Apr 2021 09:19:53: 7000000 INFO @ Sat, 17 Apr 2021 09:19:55: 13000000 INFO @ Sat, 17 Apr 2021 09:20:01: 8000000 INFO @ Sat, 17 Apr 2021 09:20:01: 8000000 INFO @ Sat, 17 Apr 2021 09:20:02: 14000000 INFO @ Sat, 17 Apr 2021 09:20:08: 9000000 INFO @ Sat, 17 Apr 2021 09:20:08: 15000000 INFO @ Sat, 17 Apr 2021 09:20:12: 9000000 INFO @ Sat, 17 Apr 2021 09:20:15: 16000000 INFO @ Sat, 17 Apr 2021 09:20:15: 10000000 INFO @ Sat, 17 Apr 2021 09:20:22: 17000000 INFO @ Sat, 17 Apr 2021 09:20:22: 11000000 INFO @ Sat, 17 Apr 2021 09:20:23: 10000000 INFO @ Sat, 17 Apr 2021 09:20:28: 18000000 INFO @ Sat, 17 Apr 2021 09:20:29: 12000000 INFO @ Sat, 17 Apr 2021 09:20:32: 11000000 INFO @ Sat, 17 Apr 2021 09:20:35: 19000000 INFO @ Sat, 17 Apr 2021 09:20:35: 13000000 INFO @ Sat, 17 Apr 2021 09:20:41: 20000000 INFO @ Sat, 17 Apr 2021 09:20:42: 14000000 INFO @ Sat, 17 Apr 2021 09:20:42: 12000000 INFO @ Sat, 17 Apr 2021 09:20:48: 21000000 INFO @ Sat, 17 Apr 2021 09:20:48: 15000000 INFO @ Sat, 17 Apr 2021 09:20:51: 13000000 INFO @ Sat, 17 Apr 2021 09:20:54: 22000000 INFO @ Sat, 17 Apr 2021 09:20:55: 16000000 INFO @ Sat, 17 Apr 2021 09:21:00: 14000000 INFO @ Sat, 17 Apr 2021 09:21:01: 23000000 INFO @ Sat, 17 Apr 2021 09:21:01: 17000000 INFO @ Sat, 17 Apr 2021 09:21:08: 18000000 INFO @ Sat, 17 Apr 2021 09:21:08: 24000000 INFO @ Sat, 17 Apr 2021 09:21:09: 15000000 INFO @ Sat, 17 Apr 2021 09:21:14: 19000000 INFO @ Sat, 17 Apr 2021 09:21:15: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:21:17: 16000000 INFO @ Sat, 17 Apr 2021 09:21:20: 20000000 INFO @ Sat, 17 Apr 2021 09:21:22: 26000000 INFO @ Sat, 17 Apr 2021 09:21:27: 21000000 INFO @ Sat, 17 Apr 2021 09:21:27: 17000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:21:30: 27000000 INFO @ Sat, 17 Apr 2021 09:21:33: 22000000 INFO @ Sat, 17 Apr 2021 09:21:36: 18000000 INFO @ Sat, 17 Apr 2021 09:21:37: 28000000 INFO @ Sat, 17 Apr 2021 09:21:40: 23000000 INFO @ Sat, 17 Apr 2021 09:21:44: 29000000 INFO @ Sat, 17 Apr 2021 09:21:45: 19000000 INFO @ Sat, 17 Apr 2021 09:21:47: 24000000 INFO @ Sat, 17 Apr 2021 09:21:51: 30000000 INFO @ Sat, 17 Apr 2021 09:21:54: 25000000 INFO @ Sat, 17 Apr 2021 09:21:54: #1 tag size is determined as 80 bps INFO @ Sat, 17 Apr 2021 09:21:54: #1 tag size = 80 INFO @ Sat, 17 Apr 2021 09:21:54: #1 total tags in treatment: 14855480 INFO @ Sat, 17 Apr 2021 09:21:54: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:21:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:21:54: #1 tags after filtering in treatment: 3556079 INFO @ Sat, 17 Apr 2021 09:21:54: #1 Redundant rate of treatment: 0.76 INFO @ Sat, 17 Apr 2021 09:21:54: #1 finished! INFO @ Sat, 17 Apr 2021 09:21:54: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:21:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:21:54: #2 number of paired peaks: 26 WARNING @ Sat, 17 Apr 2021 09:21:54: Too few paired peaks (26) 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, 17 Apr 2021 09:21:54: Process for pairing-model is terminated! INFO @ Sat, 17 Apr 2021 09:21:55: 20000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 6 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:22:01: 26000000 INFO @ Sat, 17 Apr 2021 09:22:04: 21000000 INFO @ Sat, 17 Apr 2021 09:22:08: 27000000 INFO @ Sat, 17 Apr 2021 09:22:13: 22000000 INFO @ Sat, 17 Apr 2021 09:22:15: 28000000 INFO @ Sat, 17 Apr 2021 09:22:22: 29000000 INFO @ Sat, 17 Apr 2021 09:22:23: 23000000 INFO @ Sat, 17 Apr 2021 09:22:28: 30000000 INFO @ Sat, 17 Apr 2021 09:22:31: #1 tag size is determined as 80 bps INFO @ Sat, 17 Apr 2021 09:22:31: #1 tag size = 80 INFO @ Sat, 17 Apr 2021 09:22:31: #1 total tags in treatment: 14855480 INFO @ Sat, 17 Apr 2021 09:22:31: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:22:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:22:31: #1 tags after filtering in treatment: 3556079 INFO @ Sat, 17 Apr 2021 09:22:31: #1 Redundant rate of treatment: 0.76 INFO @ Sat, 17 Apr 2021 09:22:31: #1 finished! INFO @ Sat, 17 Apr 2021 09:22:31: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:22:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:22:32: #2 number of paired peaks: 26 WARNING @ Sat, 17 Apr 2021 09:22:32: Too few paired peaks (26) 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, 17 Apr 2021 09:22:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:22:33: 24000000 INFO @ Sat, 17 Apr 2021 09:22:42: 25000000 INFO @ Sat, 17 Apr 2021 09:22:52: 26000000 INFO @ Sat, 17 Apr 2021 09:23:01: 27000000 INFO @ Sat, 17 Apr 2021 09:23:11: 28000000 INFO @ Sat, 17 Apr 2021 09:23:21: 29000000 INFO @ Sat, 17 Apr 2021 09:23:30: 30000000 INFO @ Sat, 17 Apr 2021 09:23:33: #1 tag size is determined as 80 bps INFO @ Sat, 17 Apr 2021 09:23:33: #1 tag size = 80 INFO @ Sat, 17 Apr 2021 09:23:33: #1 total tags in treatment: 14855480 INFO @ Sat, 17 Apr 2021 09:23:33: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:23:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:23:34: #1 tags after filtering in treatment: 3556079 INFO @ Sat, 17 Apr 2021 09:23:34: #1 Redundant rate of treatment: 0.76 INFO @ Sat, 17 Apr 2021 09:23:34: #1 finished! INFO @ Sat, 17 Apr 2021 09:23:34: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:23:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:23:34: #2 number of paired peaks: 26 WARNING @ Sat, 17 Apr 2021 09:23:34: Too few paired peaks (26) 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, 17 Apr 2021 09:23:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.10_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/SRX4555006/SRX4555006.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555006/SRX4555006.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling