Job ID = 14520484 SRX = SRX11781048 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:12:53 prefetch.2.10.7: 1) Downloading 'SRR15480991'... 2022-01-15T10:12:53 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:13:28 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:13:29 prefetch.2.10.7: 'SRR15480991' is valid 2022-01-15T10:13:29 prefetch.2.10.7: 1) 'SRR15480991' was downloaded successfully 2022-01-15T10:13:29 prefetch.2.10.7: 'SRR15480991' has 0 unresolved dependencies Read 6882623 spots for SRR15480991/SRR15480991.sra Written 6882623 spots for SRR15480991/SRR15480991.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:39 6882623 reads; of these: 6882623 (100.00%) were paired; of these: 3011114 (43.75%) aligned concordantly 0 times 3752405 (54.52%) aligned concordantly exactly 1 time 119104 (1.73%) aligned concordantly >1 times ---- 3011114 pairs aligned concordantly 0 times; of these: 237635 (7.89%) aligned discordantly 1 time ---- 2773479 pairs aligned 0 times concordantly or discordantly; of these: 5546958 mates make up the pairs; of these: 3608675 (65.06%) aligned 0 times 1875900 (33.82%) aligned exactly 1 time 62383 (1.12%) aligned >1 times 73.78% overall alignment rate Time searching: 00:06:40 Overall time: 00:06:40 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 8 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] 1043512 / 4089042 = 0.2552 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 19:25:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.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 19:25:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:25:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:25:39: 1000000 INFO @ Sat, 15 Jan 2022 19:25:49: 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 19:25:58: 3000000 INFO @ Sat, 15 Jan 2022 19:26:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.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 19:26:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:26:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:26:08: 4000000 INFO @ Sat, 15 Jan 2022 19:26:10: 1000000 INFO @ Sat, 15 Jan 2022 19:26:18: 5000000 INFO @ Sat, 15 Jan 2022 19:26:20: 2000000 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 19:26:28: 6000000 INFO @ Sat, 15 Jan 2022 19:26:29: 3000000 INFO @ Sat, 15 Jan 2022 19:26:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.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 19:26:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:26:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:26:38: 7000000 INFO @ Sat, 15 Jan 2022 19:26:40: 4000000 INFO @ Sat, 15 Jan 2022 19:26:40: 1000000 INFO @ Sat, 15 Jan 2022 19:26:49: 8000000 INFO @ Sat, 15 Jan 2022 19:26:49: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:26:49: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:26:49: #1 total tags in treatment: 2893391 INFO @ Sat, 15 Jan 2022 19:26:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:26:49: #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 19:26:49: #1 tags after filtering in treatment: 287105 INFO @ Sat, 15 Jan 2022 19:26:49: #1 Redundant rate of treatment: 0.90 INFO @ Sat, 15 Jan 2022 19:26:49: #1 finished! INFO @ Sat, 15 Jan 2022 19:26:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:26:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:26:49: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 19:26:49: Too few paired peaks (32) 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 19:26:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.05_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/SRX11781048/SRX11781048.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:26:50: 2000000 INFO @ Sat, 15 Jan 2022 19:26:50: 5000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:27:00: 3000000 INFO @ Sat, 15 Jan 2022 19:27:00: 6000000 INFO @ Sat, 15 Jan 2022 19:27:09: 7000000 INFO @ Sat, 15 Jan 2022 19:27:10: 4000000 INFO @ Sat, 15 Jan 2022 19:27:19: 8000000 INFO @ Sat, 15 Jan 2022 19:27:20: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:27:20: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:27:20: #1 total tags in treatment: 2893391 INFO @ Sat, 15 Jan 2022 19:27:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:27:20: #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 19:27:20: #1 tags after filtering in treatment: 287105 INFO @ Sat, 15 Jan 2022 19:27:20: #1 Redundant rate of treatment: 0.90 INFO @ Sat, 15 Jan 2022 19:27:20: #1 finished! INFO @ Sat, 15 Jan 2022 19:27:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:27:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:27:20: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 19:27:20: Too few paired peaks (32) 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 19:27:20: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 19:27:20: 5000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.10_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/SRX11781048/SRX11781048.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:27:30: 6000000 INFO @ Sat, 15 Jan 2022 19:27:40: 7000000 INFO @ Sat, 15 Jan 2022 19:27:50: 8000000 INFO @ Sat, 15 Jan 2022 19:27:51: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:27:51: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:27:51: #1 total tags in treatment: 2893391 INFO @ Sat, 15 Jan 2022 19:27:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:27:51: #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 19:27:51: #1 tags after filtering in treatment: 287105 INFO @ Sat, 15 Jan 2022 19:27:51: #1 Redundant rate of treatment: 0.90 INFO @ Sat, 15 Jan 2022 19:27:51: #1 finished! INFO @ Sat, 15 Jan 2022 19:27:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:27:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:27:51: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 19:27:51: Too few paired peaks (32) 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 19:27:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.20_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/SRX11781048/SRX11781048.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781048/SRX11781048.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling