Job ID = 14520519 SRX = SRX11781058 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:16:53 prefetch.2.10.7: 1) Downloading 'SRR15481001'... 2022-01-15T10:16:53 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:17:38 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:17:38 prefetch.2.10.7: 1) 'SRR15481001' was downloaded successfully 2022-01-15T10:17:38 prefetch.2.10.7: 'SRR15481001' has 0 unresolved dependencies Read 9702225 spots for SRR15481001/SRR15481001.sra Written 9702225 spots for SRR15481001/SRR15481001.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: 00:08:06 9702225 reads; of these: 9702225 (100.00%) were paired; of these: 1651986 (17.03%) aligned concordantly 0 times 7768062 (80.06%) aligned concordantly exactly 1 time 282177 (2.91%) aligned concordantly >1 times ---- 1651986 pairs aligned concordantly 0 times; of these: 461601 (27.94%) aligned discordantly 1 time ---- 1190385 pairs aligned 0 times concordantly or discordantly; of these: 2380770 mates make up the pairs; of these: 1737449 (72.98%) aligned 0 times 565645 (23.76%) aligned exactly 1 time 77676 (3.26%) aligned >1 times 91.05% overall alignment rate Time searching: 00:08:06 Overall time: 00:08:06 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] 3443123 / 8465744 = 0.4067 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 19:31:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.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 19:31:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:31:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:31:35: 1000000 INFO @ Sat, 15 Jan 2022 19:31:40: 2000000 INFO @ Sat, 15 Jan 2022 19:31:45: 3000000 INFO @ Sat, 15 Jan 2022 19:31:50: 4000000 INFO @ Sat, 15 Jan 2022 19:31:55: 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 19:32:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.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 19:32:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:00: 6000000 INFO @ Sat, 15 Jan 2022 19:32:06: 1000000 INFO @ Sat, 15 Jan 2022 19:32:06: 7000000 INFO @ Sat, 15 Jan 2022 19:32:11: 2000000 INFO @ Sat, 15 Jan 2022 19:32:12: 8000000 INFO @ Sat, 15 Jan 2022 19:32:17: 3000000 INFO @ Sat, 15 Jan 2022 19:32:17: 9000000 INFO @ Sat, 15 Jan 2022 19:32:22: 4000000 INFO @ Sat, 15 Jan 2022 19:32:23: 10000000 INFO @ Sat, 15 Jan 2022 19:32:27: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:32:27: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:32:27: #1 total tags in treatment: 4844492 INFO @ Sat, 15 Jan 2022 19:32:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:32:27: #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 19:32:27: #1 tags after filtering in treatment: 411837 INFO @ Sat, 15 Jan 2022 19:32:27: #1 Redundant rate of treatment: 0.91 INFO @ Sat, 15 Jan 2022 19:32:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:32:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:32:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:32:27: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 19:32:27: Too few paired peaks (26) 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 19:32:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 19:32:28: 5000000 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 19:32:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.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 19:32:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:33: 6000000 INFO @ Sat, 15 Jan 2022 19:32:37: 1000000 INFO @ Sat, 15 Jan 2022 19:32:39: 7000000 INFO @ Sat, 15 Jan 2022 19:32:44: 2000000 INFO @ Sat, 15 Jan 2022 19:32:45: 8000000 INFO @ Sat, 15 Jan 2022 19:32:51: 9000000 INFO @ Sat, 15 Jan 2022 19:32:51: 3000000 INFO @ Sat, 15 Jan 2022 19:32:56: 10000000 INFO @ Sat, 15 Jan 2022 19:32:57: 4000000 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 19:33:01: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:33:01: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:33:01: #1 total tags in treatment: 4844492 INFO @ Sat, 15 Jan 2022 19:33:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:33:01: #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 19:33:01: #1 tags after filtering in treatment: 411837 INFO @ Sat, 15 Jan 2022 19:33:01: #1 Redundant rate of treatment: 0.91 INFO @ Sat, 15 Jan 2022 19:33:01: #1 finished! INFO @ Sat, 15 Jan 2022 19:33:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:33:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:33:01: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 19:33:01: Too few paired peaks (26) 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 19:33:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.10_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/SRX11781058/SRX11781058.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:33:04: 5000000 INFO @ Sat, 15 Jan 2022 19:33:11: 6000000 INFO @ Sat, 15 Jan 2022 19:33:17: 7000000 INFO @ Sat, 15 Jan 2022 19:33:24: 8000000 INFO @ Sat, 15 Jan 2022 19:33:30: 9000000 INFO @ Sat, 15 Jan 2022 19:33:36: 10000000 INFO @ Sat, 15 Jan 2022 19:33:41: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:33:41: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:33:41: #1 total tags in treatment: 4844492 INFO @ Sat, 15 Jan 2022 19:33:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:33:41: #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 19:33:41: #1 tags after filtering in treatment: 411837 INFO @ Sat, 15 Jan 2022 19:33:41: #1 Redundant rate of treatment: 0.91 INFO @ Sat, 15 Jan 2022 19:33:41: #1 finished! INFO @ Sat, 15 Jan 2022 19:33:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:33:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:33:41: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 19:33:41: Too few paired peaks (26) 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 19:33:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.20_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/SRX11781058/SRX11781058.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781058/SRX11781058.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling