Job ID = 14520457 SRX = SRX11781037 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:08:51 prefetch.2.10.7: 1) Downloading 'SRR15480980'... 2022-01-15T10:08:51 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:09:41 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:09:41 prefetch.2.10.7: 1) 'SRR15480980' was downloaded successfully 2022-01-15T10:09:41 prefetch.2.10.7: 'SRR15480980' has 0 unresolved dependencies Read 12247085 spots for SRR15480980/SRR15480980.sra Written 12247085 spots for SRR15480980/SRR15480980.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: 01:51:05 12247085 reads; of these: 12247085 (100.00%) were paired; of these: 1640927 (13.40%) aligned concordantly 0 times 8314826 (67.89%) aligned concordantly exactly 1 time 2291332 (18.71%) aligned concordantly >1 times ---- 1640927 pairs aligned concordantly 0 times; of these: 430536 (26.24%) aligned discordantly 1 time ---- 1210391 pairs aligned 0 times concordantly or discordantly; of these: 2420782 mates make up the pairs; of these: 1810991 (74.81%) aligned 0 times 259326 (10.71%) aligned exactly 1 time 350465 (14.48%) aligned >1 times 92.61% overall alignment rate Time searching: 01:51:05 Overall time: 01:51:05 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] 982854 / 10968870 = 0.0896 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 21:09:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.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 21:09:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:09:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:43: 1000000 INFO @ Sat, 15 Jan 2022 21:09:50: 2000000 INFO @ Sat, 15 Jan 2022 21:09:57: 3000000 INFO @ Sat, 15 Jan 2022 21:10:04: 4000000 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 21:10:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.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 21:10:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:10:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:11: 5000000 INFO @ Sat, 15 Jan 2022 21:10:15: 1000000 INFO @ Sat, 15 Jan 2022 21:10:20: 6000000 INFO @ Sat, 15 Jan 2022 21:10:24: 2000000 INFO @ Sat, 15 Jan 2022 21:10:28: 7000000 INFO @ Sat, 15 Jan 2022 21:10:34: 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 21:10:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.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 21:10:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:10:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:37: 8000000 INFO @ Sat, 15 Jan 2022 21:10:43: 4000000 INFO @ Sat, 15 Jan 2022 21:10:45: 1000000 INFO @ Sat, 15 Jan 2022 21:10:45: 9000000 INFO @ Sat, 15 Jan 2022 21:10:52: 5000000 INFO @ Sat, 15 Jan 2022 21:10:53: 2000000 INFO @ Sat, 15 Jan 2022 21:10:54: 10000000 INFO @ Sat, 15 Jan 2022 21:11:01: 6000000 INFO @ Sat, 15 Jan 2022 21:11:02: 3000000 INFO @ Sat, 15 Jan 2022 21:11:02: 11000000 INFO @ Sat, 15 Jan 2022 21:11:10: 7000000 INFO @ Sat, 15 Jan 2022 21:11:10: 4000000 INFO @ Sat, 15 Jan 2022 21:11:11: 12000000 INFO @ Sat, 15 Jan 2022 21:11:19: 5000000 INFO @ Sat, 15 Jan 2022 21:11:19: 8000000 INFO @ Sat, 15 Jan 2022 21:11:19: 13000000 INFO @ Sat, 15 Jan 2022 21:11:27: 6000000 INFO @ Sat, 15 Jan 2022 21:11:28: 14000000 INFO @ Sat, 15 Jan 2022 21:11:28: 9000000 INFO @ Sat, 15 Jan 2022 21:11:35: 7000000 INFO @ Sat, 15 Jan 2022 21:11:36: 15000000 INFO @ Sat, 15 Jan 2022 21:11:38: 10000000 INFO @ Sat, 15 Jan 2022 21:11:44: 8000000 INFO @ Sat, 15 Jan 2022 21:11:45: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:11:47: 11000000 INFO @ Sat, 15 Jan 2022 21:11:52: 9000000 INFO @ Sat, 15 Jan 2022 21:11:53: 17000000 INFO @ Sat, 15 Jan 2022 21:11:57: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:12:01: 10000000 INFO @ Sat, 15 Jan 2022 21:12:02: 18000000 INFO @ Sat, 15 Jan 2022 21:12:07: 13000000 INFO @ Sat, 15 Jan 2022 21:12:09: 11000000 INFO @ Sat, 15 Jan 2022 21:12:10: 19000000 INFO @ Sat, 15 Jan 2022 21:12:16: 14000000 INFO @ Sat, 15 Jan 2022 21:12:18: 12000000 INFO @ Sat, 15 Jan 2022 21:12:19: 20000000 INFO @ Sat, 15 Jan 2022 21:12:25: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:12:25: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:12:25: #1 total tags in treatment: 9646324 INFO @ Sat, 15 Jan 2022 21:12:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:12:25: #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 21:12:25: #1 tags after filtering in treatment: 6516817 INFO @ Sat, 15 Jan 2022 21:12:25: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:12:25: #1 finished! INFO @ Sat, 15 Jan 2022 21:12:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:12:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:12:25: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:12:25: 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 21:12:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.05_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/SRX11781037/SRX11781037.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:12:26: 15000000 INFO @ Sat, 15 Jan 2022 21:12:26: 13000000 INFO @ Sat, 15 Jan 2022 21:12:34: 14000000 INFO @ Sat, 15 Jan 2022 21:12:35: 16000000 INFO @ Sat, 15 Jan 2022 21:12:43: 15000000 INFO @ Sat, 15 Jan 2022 21:12:45: 17000000 INFO @ Sat, 15 Jan 2022 21:12:51: 16000000 INFO @ Sat, 15 Jan 2022 21:12:54: 18000000 INFO @ Sat, 15 Jan 2022 21:12:59: 17000000 INFO @ Sat, 15 Jan 2022 21:13:04: 19000000 INFO @ Sat, 15 Jan 2022 21:13:08: 18000000 INFO @ Sat, 15 Jan 2022 21:13:13: 20000000 INFO @ Sat, 15 Jan 2022 21:13:16: 19000000 INFO @ Sat, 15 Jan 2022 21:13:20: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:13:20: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:13:20: #1 total tags in treatment: 9646324 INFO @ Sat, 15 Jan 2022 21:13:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:13:20: #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 21:13:20: #1 tags after filtering in treatment: 6516817 INFO @ Sat, 15 Jan 2022 21:13:20: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:13:20: #1 finished! INFO @ Sat, 15 Jan 2022 21:13:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:13:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:13:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:13:20: 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 21:13:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.10_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/SRX11781037/SRX11781037.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:13:24: 20000000 INFO @ Sat, 15 Jan 2022 21:13:29: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:13:29: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:13:29: #1 total tags in treatment: 9646324 INFO @ Sat, 15 Jan 2022 21:13:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:13:29: #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 21:13:30: #1 tags after filtering in treatment: 6516817 INFO @ Sat, 15 Jan 2022 21:13:30: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:13:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:13:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:13:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:13:30: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:13:30: 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 21:13:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.20_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/SRX11781037/SRX11781037.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781037/SRX11781037.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling