Job ID = 14520978 SRX = SRX8245456 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15915551 spots for SRR11684667/SRR11684667.sra Written 15915551 spots for SRR11684667/SRR11684667.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: 00:17:05 15915551 reads; of these: 15915551 (100.00%) were paired; of these: 2869657 (18.03%) aligned concordantly 0 times 12101006 (76.03%) aligned concordantly exactly 1 time 944888 (5.94%) aligned concordantly >1 times ---- 2869657 pairs aligned concordantly 0 times; of these: 73711 (2.57%) aligned discordantly 1 time ---- 2795946 pairs aligned 0 times concordantly or discordantly; of these: 5591892 mates make up the pairs; of these: 3789690 (67.77%) aligned 0 times 1626229 (29.08%) aligned exactly 1 time 175973 (3.15%) aligned >1 times 88.09% overall alignment rate Time searching: 00:17:05 Overall time: 00:17:05 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 12 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] 1977608 / 13117420 = 0.1508 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 20:42:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.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 20:42:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:42:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:42:36: 1000000 INFO @ Sat, 15 Jan 2022 20:42:48: 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 20:42:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.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 20:42:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:42:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:42:57: 3000000 INFO @ Sat, 15 Jan 2022 20:43:04: 1000000 INFO @ Sat, 15 Jan 2022 20:43:07: 4000000 INFO @ Sat, 15 Jan 2022 20:43:13: 2000000 INFO @ Sat, 15 Jan 2022 20:43:17: 5000000 INFO @ Sat, 15 Jan 2022 20:43:21: 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 20:43:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.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 20:43:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:27: 6000000 INFO @ Sat, 15 Jan 2022 20:43:29: 4000000 INFO @ Sat, 15 Jan 2022 20:43:36: 1000000 INFO @ Sat, 15 Jan 2022 20:43:37: 5000000 INFO @ Sat, 15 Jan 2022 20:43:38: 7000000 INFO @ Sat, 15 Jan 2022 20:43:45: 6000000 INFO @ Sat, 15 Jan 2022 20:43:46: 2000000 INFO @ Sat, 15 Jan 2022 20:43:49: 8000000 INFO @ Sat, 15 Jan 2022 20:43:53: 7000000 INFO @ Sat, 15 Jan 2022 20:43:55: 3000000 INFO @ Sat, 15 Jan 2022 20:44:00: 9000000 INFO @ Sat, 15 Jan 2022 20:44:01: 8000000 INFO @ Sat, 15 Jan 2022 20:44:05: 4000000 INFO @ Sat, 15 Jan 2022 20:44:10: 9000000 INFO @ Sat, 15 Jan 2022 20:44:12: 10000000 INFO @ Sat, 15 Jan 2022 20:44:15: 5000000 INFO @ Sat, 15 Jan 2022 20:44:18: 10000000 INFO @ Sat, 15 Jan 2022 20:44:23: 11000000 INFO @ Sat, 15 Jan 2022 20:44:25: 6000000 INFO @ Sat, 15 Jan 2022 20:44:26: 11000000 INFO @ Sat, 15 Jan 2022 20:44:33: 12000000 INFO @ Sat, 15 Jan 2022 20:44:35: 12000000 INFO @ Sat, 15 Jan 2022 20:44:35: 7000000 INFO @ Sat, 15 Jan 2022 20:44:43: 13000000 INFO @ Sat, 15 Jan 2022 20:44:43: 13000000 INFO @ Sat, 15 Jan 2022 20:44:44: 8000000 INFO @ Sat, 15 Jan 2022 20:44:53: 14000000 INFO @ Sat, 15 Jan 2022 20:44:55: 14000000 INFO @ Sat, 15 Jan 2022 20:44:56: 9000000 INFO @ Sat, 15 Jan 2022 20:45:02: 15000000 INFO @ Sat, 15 Jan 2022 20:45:07: 15000000 INFO @ Sat, 15 Jan 2022 20:45:08: 10000000 INFO @ Sat, 15 Jan 2022 20:45:12: 16000000 INFO @ Sat, 15 Jan 2022 20:45:16: 16000000 INFO @ Sat, 15 Jan 2022 20:45:17: 11000000 INFO @ Sat, 15 Jan 2022 20:45:20: 17000000 INFO @ Sat, 15 Jan 2022 20:45:25: 12000000 INFO @ Sat, 15 Jan 2022 20:45:26: 17000000 INFO @ Sat, 15 Jan 2022 20:45:28: 18000000 INFO @ Sat, 15 Jan 2022 20:45:33: 13000000 INFO @ Sat, 15 Jan 2022 20:45:35: 18000000 INFO @ Sat, 15 Jan 2022 20:45:36: 19000000 INFO @ Sat, 15 Jan 2022 20:45:41: 14000000 INFO @ Sat, 15 Jan 2022 20:45:44: 20000000 INFO @ Sat, 15 Jan 2022 20:45:45: 19000000 INFO @ Sat, 15 Jan 2022 20:45:49: 15000000 INFO @ Sat, 15 Jan 2022 20:45:52: 21000000 INFO @ Sat, 15 Jan 2022 20:45:54: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:45:57: 16000000 INFO @ Sat, 15 Jan 2022 20:46:00: 22000000 INFO @ Sat, 15 Jan 2022 20:46:03: 21000000 INFO @ Sat, 15 Jan 2022 20:46:06: 17000000 INFO @ Sat, 15 Jan 2022 20:46:10: 23000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:46:13: 22000000 INFO @ Sat, 15 Jan 2022 20:46:14: 18000000 INFO @ Sat, 15 Jan 2022 20:46:18: 24000000 INFO @ Sat, 15 Jan 2022 20:46:19: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:46:19: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:46:19: #1 total tags in treatment: 11073089 INFO @ Sat, 15 Jan 2022 20:46:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:46:19: #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 20:46:20: #1 tags after filtering in treatment: 5166848 INFO @ Sat, 15 Jan 2022 20:46:20: #1 Redundant rate of treatment: 0.53 INFO @ Sat, 15 Jan 2022 20:46:20: #1 finished! INFO @ Sat, 15 Jan 2022 20:46:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:46:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:46:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:46:20: 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 20:46:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.10_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/SRX8245456/SRX8245456.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:46:22: 19000000 INFO @ Sat, 15 Jan 2022 20:46:23: 23000000 INFO @ Sat, 15 Jan 2022 20:46:30: 20000000 INFO @ Sat, 15 Jan 2022 20:46:32: 24000000 INFO @ Sat, 15 Jan 2022 20:46:33: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:46:33: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:46:33: #1 total tags in treatment: 11073089 INFO @ Sat, 15 Jan 2022 20:46:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:46:33: #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 20:46:33: #1 tags after filtering in treatment: 5166848 INFO @ Sat, 15 Jan 2022 20:46:33: #1 Redundant rate of treatment: 0.53 INFO @ Sat, 15 Jan 2022 20:46:33: #1 finished! INFO @ Sat, 15 Jan 2022 20:46:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:46:34: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:46:34: 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 20:46:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:46:37: 21000000 INFO @ Sat, 15 Jan 2022 20:46:45: 22000000 INFO @ Sat, 15 Jan 2022 20:46:53: 23000000 INFO @ Sat, 15 Jan 2022 20:47:01: 24000000 INFO @ Sat, 15 Jan 2022 20:47:02: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:47:02: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:47:02: #1 total tags in treatment: 11073089 INFO @ Sat, 15 Jan 2022 20:47:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:47:02: #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 20:47:02: #1 tags after filtering in treatment: 5166848 INFO @ Sat, 15 Jan 2022 20:47:02: #1 Redundant rate of treatment: 0.53 INFO @ Sat, 15 Jan 2022 20:47:02: #1 finished! INFO @ Sat, 15 Jan 2022 20:47:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:47:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:47:02: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:47:02: 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 20:47:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245456/SRX8245456.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling