Job ID = 12531673 SRX = SRX4555045 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16962158 spots for SRR7696743/SRR7696743.sra Written 16962158 spots for SRR7696743/SRR7696743.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: 00:22:59 16962158 reads; of these: 16962158 (100.00%) were paired; of these: 1049041 (6.18%) aligned concordantly 0 times 8684429 (51.20%) aligned concordantly exactly 1 time 7228688 (42.62%) aligned concordantly >1 times ---- 1049041 pairs aligned concordantly 0 times; of these: 56555 (5.39%) aligned discordantly 1 time ---- 992486 pairs aligned 0 times concordantly or discordantly; of these: 1984972 mates make up the pairs; of these: 1617708 (81.50%) aligned 0 times 212358 (10.70%) aligned exactly 1 time 154906 (7.80%) aligned >1 times 95.23% overall alignment rate Time searching: 00:22:59 Overall time: 00:22:59 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 24 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] 2691316 / 7239430 = 0.3718 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 09:40:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.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 09:40:11: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:40:11: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:40:19: 1000000 INFO @ Sat, 17 Apr 2021 09:40:26: 2000000 INFO @ Sat, 17 Apr 2021 09:40:33: 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 09:40:40: 4000000 INFO @ Sat, 17 Apr 2021 09:40:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.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 09:40:41: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:40:41: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:40:48: 5000000 INFO @ Sat, 17 Apr 2021 09:40:49: 1000000 INFO @ Sat, 17 Apr 2021 09:40:57: 6000000 INFO @ Sat, 17 Apr 2021 09:40:58: 2000000 INFO @ Sat, 17 Apr 2021 09:41:05: 7000000 INFO @ Sat, 17 Apr 2021 09:41:06: 3000000 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 09:41:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.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 09:41:11: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:41:11: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:41:13: 8000000 INFO @ Sat, 17 Apr 2021 09:41:14: 4000000 INFO @ Sat, 17 Apr 2021 09:41:20: 1000000 INFO @ Sat, 17 Apr 2021 09:41:22: 9000000 INFO @ Sat, 17 Apr 2021 09:41:22: 5000000 INFO @ Sat, 17 Apr 2021 09:41:30: 2000000 INFO @ Sat, 17 Apr 2021 09:41:30: 10000000 INFO @ Sat, 17 Apr 2021 09:41:31: 6000000 INFO @ Sat, 17 Apr 2021 09:41:38: 3000000 INFO @ Sat, 17 Apr 2021 09:41:39: 11000000 INFO @ Sat, 17 Apr 2021 09:41:40: 7000000 INFO @ Sat, 17 Apr 2021 09:41:47: 12000000 INFO @ Sat, 17 Apr 2021 09:41:47: 4000000 INFO @ Sat, 17 Apr 2021 09:41:49: 8000000 INFO @ Sat, 17 Apr 2021 09:41:55: 13000000 INFO @ Sat, 17 Apr 2021 09:41:56: 5000000 INFO @ Sat, 17 Apr 2021 09:41:58: 9000000 INFO @ Sat, 17 Apr 2021 09:42:02: 14000000 INFO @ Sat, 17 Apr 2021 09:42:05: 6000000 INFO @ Sat, 17 Apr 2021 09:42:06: 10000000 INFO @ Sat, 17 Apr 2021 09:42:10: 15000000 INFO @ Sat, 17 Apr 2021 09:42:14: 7000000 INFO @ Sat, 17 Apr 2021 09:42:14: 11000000 INFO @ Sat, 17 Apr 2021 09:42:17: 16000000 INFO @ Sat, 17 Apr 2021 09:42:22: 12000000 INFO @ Sat, 17 Apr 2021 09:42:23: 8000000 INFO @ Sat, 17 Apr 2021 09:42:25: 17000000 INFO @ Sat, 17 Apr 2021 09:42:29: 13000000 INFO @ Sat, 17 Apr 2021 09:42:33: 18000000 INFO @ Sat, 17 Apr 2021 09:42:33: 9000000 INFO @ Sat, 17 Apr 2021 09:42:37: 14000000 INFO @ Sat, 17 Apr 2021 09:42:40: 19000000 INFO @ Sat, 17 Apr 2021 09:42:42: 10000000 INFO @ Sat, 17 Apr 2021 09:42:45: 15000000 INFO @ Sat, 17 Apr 2021 09:42:48: 20000000 INFO @ Sat, 17 Apr 2021 09:42:51: 11000000 INFO @ Sat, 17 Apr 2021 09:42:53: 16000000 INFO @ Sat, 17 Apr 2021 09:42:56: 21000000 INFO @ Sat, 17 Apr 2021 09:42:59: 12000000 INFO @ Sat, 17 Apr 2021 09:43:01: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:43:05: 22000000 INFO @ Sat, 17 Apr 2021 09:43:08: 13000000 INFO @ Sat, 17 Apr 2021 09:43:10: 18000000 INFO @ Sat, 17 Apr 2021 09:43:15: 23000000 INFO @ Sat, 17 Apr 2021 09:43:16: 14000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:43:17: 19000000 INFO @ Sat, 17 Apr 2021 09:43:24: 24000000 INFO @ Sat, 17 Apr 2021 09:43:24: 15000000 INFO @ Sat, 17 Apr 2021 09:43:25: 20000000 INFO @ Sat, 17 Apr 2021 09:43:32: 16000000 INFO @ Sat, 17 Apr 2021 09:43:33: 25000000 INFO @ Sat, 17 Apr 2021 09:43:33: 21000000 INFO @ Sat, 17 Apr 2021 09:43:41: 17000000 INFO @ Sat, 17 Apr 2021 09:43:42: 22000000 INFO @ Sat, 17 Apr 2021 09:43:42: 26000000 INFO @ Sat, 17 Apr 2021 09:43:49: 18000000 INFO @ Sat, 17 Apr 2021 09:43:51: #1 tag size is determined as 74 bps INFO @ Sat, 17 Apr 2021 09:43:51: #1 tag size = 74 INFO @ Sat, 17 Apr 2021 09:43:51: #1 total tags in treatment: 13225767 INFO @ Sat, 17 Apr 2021 09:43:51: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:43:51: #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 09:43:51: 23000000 INFO @ Sat, 17 Apr 2021 09:43:51: #1 tags after filtering in treatment: 3344135 INFO @ Sat, 17 Apr 2021 09:43:51: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:43:51: #1 finished! INFO @ Sat, 17 Apr 2021 09:43:51: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:43:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:43:52: #2 number of paired peaks: 29 WARNING @ Sat, 17 Apr 2021 09:43:52: Too few paired peaks (29) 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 09:43:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.05_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/SRX4555045/SRX4555045.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:43:57: 19000000 INFO @ Sat, 17 Apr 2021 09:43:59: 24000000 INFO @ Sat, 17 Apr 2021 09:44:05: 20000000 INFO @ Sat, 17 Apr 2021 09:44:07: 25000000 INFO @ Sat, 17 Apr 2021 09:44:14: 21000000 INFO @ Sat, 17 Apr 2021 09:44:15: 26000000 INFO @ Sat, 17 Apr 2021 09:44:22: #1 tag size is determined as 74 bps INFO @ Sat, 17 Apr 2021 09:44:22: #1 tag size = 74 INFO @ Sat, 17 Apr 2021 09:44:22: #1 total tags in treatment: 13225767 INFO @ Sat, 17 Apr 2021 09:44:22: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:44:22: #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 09:44:23: #1 tags after filtering in treatment: 3344135 INFO @ Sat, 17 Apr 2021 09:44:23: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:44:23: #1 finished! INFO @ Sat, 17 Apr 2021 09:44:23: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:44:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:44:23: #2 number of paired peaks: 29 WARNING @ Sat, 17 Apr 2021 09:44:23: Too few paired peaks (29) 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 09:44:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 17 Apr 2021 09:44:23: 22000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:44:32: 23000000 INFO @ Sat, 17 Apr 2021 09:44:40: 24000000 INFO @ Sat, 17 Apr 2021 09:44:49: 25000000 INFO @ Sat, 17 Apr 2021 09:44:58: 26000000 INFO @ Sat, 17 Apr 2021 09:45:06: #1 tag size is determined as 74 bps INFO @ Sat, 17 Apr 2021 09:45:06: #1 tag size = 74 INFO @ Sat, 17 Apr 2021 09:45:06: #1 total tags in treatment: 13225767 INFO @ Sat, 17 Apr 2021 09:45:06: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:45:06: #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 09:45:06: #1 tags after filtering in treatment: 3344135 INFO @ Sat, 17 Apr 2021 09:45:06: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:45:06: #1 finished! INFO @ Sat, 17 Apr 2021 09:45:06: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:45:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:45:07: #2 number of paired peaks: 29 WARNING @ Sat, 17 Apr 2021 09:45:07: Too few paired peaks (29) 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 09:45:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.20_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/SRX4555045/SRX4555045.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555045/SRX4555045.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling