Job ID = 14521992 SRX = SRX7756561 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13638333 spots for SRR11119559/SRR11119559.sra Written 13638333 spots for SRR11119559/SRR11119559.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: 00:15:01 13638333 reads; of these: 13638333 (100.00%) were paired; of these: 1675977 (12.29%) aligned concordantly 0 times 11101155 (81.40%) aligned concordantly exactly 1 time 861201 (6.31%) aligned concordantly >1 times ---- 1675977 pairs aligned concordantly 0 times; of these: 693035 (41.35%) aligned discordantly 1 time ---- 982942 pairs aligned 0 times concordantly or discordantly; of these: 1965884 mates make up the pairs; of these: 1684278 (85.68%) aligned 0 times 142097 (7.23%) aligned exactly 1 time 139509 (7.10%) aligned >1 times 93.83% overall alignment rate Time searching: 00:15:01 Overall time: 00:15:01 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 20 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] 1830587 / 12630923 = 0.1449 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 22:28:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.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 22:28:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:28:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:28:25: 1000000 INFO @ Sat, 15 Jan 2022 22:28:34: 2000000 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 22:28:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.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 22:28:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:28:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:28:44: 3000000 INFO @ Sat, 15 Jan 2022 22:28:53: 1000000 INFO @ Sat, 15 Jan 2022 22:28:55: 4000000 INFO @ Sat, 15 Jan 2022 22:29:03: 2000000 INFO @ Sat, 15 Jan 2022 22:29:06: 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 22:29:13: 3000000 INFO @ Sat, 15 Jan 2022 22:29:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.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 22:29:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:29:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:29:16: 6000000 INFO @ Sat, 15 Jan 2022 22:29:23: 4000000 INFO @ Sat, 15 Jan 2022 22:29:24: 1000000 INFO @ Sat, 15 Jan 2022 22:29:26: 7000000 INFO @ Sat, 15 Jan 2022 22:29:33: 5000000 INFO @ Sat, 15 Jan 2022 22:29:34: 2000000 INFO @ Sat, 15 Jan 2022 22:29:37: 8000000 INFO @ Sat, 15 Jan 2022 22:29:43: 6000000 INFO @ Sat, 15 Jan 2022 22:29:44: 3000000 INFO @ Sat, 15 Jan 2022 22:29:47: 9000000 INFO @ Sat, 15 Jan 2022 22:29:54: 7000000 INFO @ Sat, 15 Jan 2022 22:29:54: 4000000 INFO @ Sat, 15 Jan 2022 22:29:58: 10000000 INFO @ Sat, 15 Jan 2022 22:30:04: 8000000 INFO @ Sat, 15 Jan 2022 22:30:04: 5000000 INFO @ Sat, 15 Jan 2022 22:30:08: 11000000 INFO @ Sat, 15 Jan 2022 22:30:14: 9000000 INFO @ Sat, 15 Jan 2022 22:30:14: 6000000 INFO @ Sat, 15 Jan 2022 22:30:19: 12000000 INFO @ Sat, 15 Jan 2022 22:30:24: 10000000 INFO @ Sat, 15 Jan 2022 22:30:24: 7000000 INFO @ Sat, 15 Jan 2022 22:30:29: 13000000 INFO @ Sat, 15 Jan 2022 22:30:34: 11000000 INFO @ Sat, 15 Jan 2022 22:30:34: 8000000 INFO @ Sat, 15 Jan 2022 22:30:39: 14000000 INFO @ Sat, 15 Jan 2022 22:30:43: 12000000 INFO @ Sat, 15 Jan 2022 22:30:44: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:30:50: 15000000 INFO @ Sat, 15 Jan 2022 22:30:53: 13000000 INFO @ Sat, 15 Jan 2022 22:30:54: 10000000 INFO @ Sat, 15 Jan 2022 22:31:00: 16000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:31:03: 14000000 INFO @ Sat, 15 Jan 2022 22:31:04: 11000000 INFO @ Sat, 15 Jan 2022 22:31:11: 17000000 INFO @ Sat, 15 Jan 2022 22:31:13: 15000000 INFO @ Sat, 15 Jan 2022 22:31:14: 12000000 INFO @ Sat, 15 Jan 2022 22:31:21: 18000000 INFO @ Sat, 15 Jan 2022 22:31:22: 16000000 INFO @ Sat, 15 Jan 2022 22:31:23: 13000000 INFO @ Sat, 15 Jan 2022 22:31:32: 19000000 INFO @ Sat, 15 Jan 2022 22:31:32: 17000000 INFO @ Sat, 15 Jan 2022 22:31:33: 14000000 INFO @ Sat, 15 Jan 2022 22:31:42: 18000000 INFO @ Sat, 15 Jan 2022 22:31:42: 20000000 INFO @ Sat, 15 Jan 2022 22:31:43: 15000000 INFO @ Sat, 15 Jan 2022 22:31:52: 19000000 INFO @ Sat, 15 Jan 2022 22:31:53: 16000000 INFO @ Sat, 15 Jan 2022 22:31:53: 21000000 INFO @ Sat, 15 Jan 2022 22:32:02: 20000000 INFO @ Sat, 15 Jan 2022 22:32:02: 17000000 INFO @ Sat, 15 Jan 2022 22:32:03: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:32:03: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:32:03: #1 total tags in treatment: 10212932 INFO @ Sat, 15 Jan 2022 22:32:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:32:03: #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 22:32:03: #1 tags after filtering in treatment: 7346331 INFO @ Sat, 15 Jan 2022 22:32:03: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 22:32:03: #1 finished! INFO @ Sat, 15 Jan 2022 22:32:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:32:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:32:03: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:32:03: 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 @ Sat, 15 Jan 2022 22:32:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.05_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/SRX7756561/SRX7756561.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:32:11: 21000000 INFO @ Sat, 15 Jan 2022 22:32:12: 18000000 INFO @ Sat, 15 Jan 2022 22:32:20: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:32:20: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:32:20: #1 total tags in treatment: 10212932 INFO @ Sat, 15 Jan 2022 22:32:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:32:20: #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 22:32:20: #1 tags after filtering in treatment: 7346331 INFO @ Sat, 15 Jan 2022 22:32:20: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 22:32:20: #1 finished! INFO @ Sat, 15 Jan 2022 22:32:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:32:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:32:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:32:20: 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 @ Sat, 15 Jan 2022 22:32:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.10_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/SRX7756561/SRX7756561.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:32:21: 19000000 INFO @ Sat, 15 Jan 2022 22:32:30: 20000000 INFO @ Sat, 15 Jan 2022 22:32:38: 21000000 INFO @ Sat, 15 Jan 2022 22:32:46: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:32:46: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:32:46: #1 total tags in treatment: 10212932 INFO @ Sat, 15 Jan 2022 22:32:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:32:46: #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 22:32:47: #1 tags after filtering in treatment: 7346331 INFO @ Sat, 15 Jan 2022 22:32:47: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 22:32:47: #1 finished! INFO @ Sat, 15 Jan 2022 22:32:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:32:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:32:47: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:32:47: 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 @ Sat, 15 Jan 2022 22:32:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.20_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/SRX7756561/SRX7756561.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756561/SRX7756561.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling