Job ID = 14520480 SRX = SRX11781044 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:12:23 prefetch.2.10.7: 1) Downloading 'SRR15480987'... 2022-01-15T10:12:23 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:12:59 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:13:00 prefetch.2.10.7: 'SRR15480987' is valid 2022-01-15T10:13:00 prefetch.2.10.7: 1) 'SRR15480987' was downloaded successfully 2022-01-15T10:13:00 prefetch.2.10.7: 'SRR15480987' has 0 unresolved dependencies Read 8343107 spots for SRR15480987/SRR15480987.sra Written 8343107 spots for SRR15480987/SRR15480987.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: 00:05:25 8343107 reads; of these: 8343107 (100.00%) were paired; of these: 2520445 (30.21%) aligned concordantly 0 times 5651494 (67.74%) aligned concordantly exactly 1 time 171168 (2.05%) aligned concordantly >1 times ---- 2520445 pairs aligned concordantly 0 times; of these: 551766 (21.89%) aligned discordantly 1 time ---- 1968679 pairs aligned 0 times concordantly or discordantly; of these: 3937358 mates make up the pairs; of these: 2982342 (75.74%) aligned 0 times 892435 (22.67%) aligned exactly 1 time 62581 (1.59%) aligned >1 times 82.13% overall alignment rate Time searching: 00:05:25 Overall time: 00:05:25 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] 2824243 / 6318735 = 0.4470 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 19:22:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.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 19:22:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:22:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:22:58: 1000000 INFO @ Sat, 15 Jan 2022 19:23:04: 2000000 INFO @ Sat, 15 Jan 2022 19:23:09: 3000000 INFO @ Sat, 15 Jan 2022 19:23:15: 4000000 INFO @ Sat, 15 Jan 2022 19:23:20: 5000000 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 19:23:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.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 19:23:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:23:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:23:26: 6000000 INFO @ Sat, 15 Jan 2022 19:23:30: 1000000 INFO @ Sat, 15 Jan 2022 19:23:33: 7000000 INFO @ Sat, 15 Jan 2022 19:23:37: 2000000 INFO @ Sat, 15 Jan 2022 19:23:40: 8000000 INFO @ Sat, 15 Jan 2022 19:23:40: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:23:40: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:23:40: #1 total tags in treatment: 3359034 INFO @ Sat, 15 Jan 2022 19:23:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:23:40: #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 19:23:40: #1 tags after filtering in treatment: 340542 INFO @ Sat, 15 Jan 2022 19:23:40: #1 Redundant rate of treatment: 0.90 INFO @ Sat, 15 Jan 2022 19:23:40: #1 finished! INFO @ Sat, 15 Jan 2022 19:23:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:23:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:23:40: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:23:40: Too few paired peaks (34) 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 19:23:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.05_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/SRX11781044/SRX11781044.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:23:43: 3000000 INFO @ Sat, 15 Jan 2022 19:23:49: 4000000 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 19:23:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.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 19:23:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:23:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:23:55: 5000000 INFO @ Sat, 15 Jan 2022 19:24:01: 1000000 INFO @ Sat, 15 Jan 2022 19:24:03: 6000000 INFO @ Sat, 15 Jan 2022 19:24:09: 2000000 INFO @ Sat, 15 Jan 2022 19:24:10: 7000000 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 19:24:17: 3000000 INFO @ Sat, 15 Jan 2022 19:24:18: 8000000 INFO @ Sat, 15 Jan 2022 19:24:18: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:24:18: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:24:18: #1 total tags in treatment: 3359034 INFO @ Sat, 15 Jan 2022 19:24:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:24:18: #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 19:24:18: #1 tags after filtering in treatment: 340542 INFO @ Sat, 15 Jan 2022 19:24:18: #1 Redundant rate of treatment: 0.90 INFO @ Sat, 15 Jan 2022 19:24:18: #1 finished! INFO @ Sat, 15 Jan 2022 19:24:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:24:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:24:18: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:24:18: Too few paired peaks (34) 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 19:24:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.10_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/SRX11781044/SRX11781044.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:24:25: 4000000 INFO @ Sat, 15 Jan 2022 19:24:32: 5000000 INFO @ Sat, 15 Jan 2022 19:24:39: 6000000 INFO @ Sat, 15 Jan 2022 19:24:47: 7000000 INFO @ Sat, 15 Jan 2022 19:24:54: 8000000 INFO @ Sat, 15 Jan 2022 19:24:55: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:24:55: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:24:55: #1 total tags in treatment: 3359034 INFO @ Sat, 15 Jan 2022 19:24:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:24:55: #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 19:24:55: #1 tags after filtering in treatment: 340542 INFO @ Sat, 15 Jan 2022 19:24:55: #1 Redundant rate of treatment: 0.90 INFO @ Sat, 15 Jan 2022 19:24:55: #1 finished! INFO @ Sat, 15 Jan 2022 19:24:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:24:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:24:55: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 19:24:55: Too few paired peaks (34) 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 19:24:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.20_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/SRX11781044/SRX11781044.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781044/SRX11781044.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling