Job ID = 14520432 SRX = SRX11781027 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:05:22 prefetch.2.10.7: 1) Downloading 'SRR15480970'... 2022-01-15T10:05:22 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:05:51 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:06:19 prefetch.2.10.7: 'SRR15480970' is valid 2022-01-15T10:06:19 prefetch.2.10.7: 1) 'SRR15480970' was downloaded successfully 2022-01-15T10:06:19 prefetch.2.10.7: 'SRR15480970' has 0 unresolved dependencies Read 7671882 spots for SRR15480970/SRR15480970.sra Written 7671882 spots for SRR15480970/SRR15480970.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: 00:09:03 7671882 reads; of these: 7671882 (100.00%) were paired; of these: 1188006 (15.49%) aligned concordantly 0 times 4842538 (63.12%) aligned concordantly exactly 1 time 1641338 (21.39%) aligned concordantly >1 times ---- 1188006 pairs aligned concordantly 0 times; of these: 392659 (33.05%) aligned discordantly 1 time ---- 795347 pairs aligned 0 times concordantly or discordantly; of these: 1590694 mates make up the pairs; of these: 1236106 (77.71%) aligned 0 times 88758 (5.58%) aligned exactly 1 time 265830 (16.71%) aligned >1 times 91.94% overall alignment rate Time searching: 00:09:03 Overall time: 00:09:03 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] 342399 / 6837021 = 0.0501 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 19:24:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.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 19:24:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:24:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:25:07: 1000000 INFO @ Sat, 15 Jan 2022 19:25:15: 2000000 INFO @ Sat, 15 Jan 2022 19:25:22: 3000000 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 19:25:29: 4000000 INFO @ Sat, 15 Jan 2022 19:25:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.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 19:25:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:25:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:25:36: 5000000 INFO @ Sat, 15 Jan 2022 19:25:37: 1000000 INFO @ Sat, 15 Jan 2022 19:25:44: 6000000 INFO @ Sat, 15 Jan 2022 19:25:45: 2000000 INFO @ Sat, 15 Jan 2022 19:25:52: 7000000 INFO @ Sat, 15 Jan 2022 19:25:53: 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 19:25:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.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 19:25:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:25:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:25:59: 8000000 INFO @ Sat, 15 Jan 2022 19:26:01: 4000000 INFO @ Sat, 15 Jan 2022 19:26:08: 9000000 INFO @ Sat, 15 Jan 2022 19:26:08: 1000000 INFO @ Sat, 15 Jan 2022 19:26:10: 5000000 INFO @ Sat, 15 Jan 2022 19:26:17: 10000000 INFO @ Sat, 15 Jan 2022 19:26:17: 2000000 INFO @ Sat, 15 Jan 2022 19:26:20: 6000000 INFO @ Sat, 15 Jan 2022 19:26:26: 11000000 INFO @ Sat, 15 Jan 2022 19:26:27: 3000000 INFO @ Sat, 15 Jan 2022 19:26:28: 7000000 INFO @ Sat, 15 Jan 2022 19:26:35: 12000000 INFO @ Sat, 15 Jan 2022 19:26:35: 4000000 INFO @ Sat, 15 Jan 2022 19:26:37: 8000000 INFO @ Sat, 15 Jan 2022 19:26:43: 5000000 INFO @ Sat, 15 Jan 2022 19:26:44: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:26:46: 9000000 INFO @ Sat, 15 Jan 2022 19:26:48: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:26:48: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:26:48: #1 total tags in treatment: 6153745 INFO @ Sat, 15 Jan 2022 19:26:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:26:48: #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 19:26:48: #1 tags after filtering in treatment: 4431894 INFO @ Sat, 15 Jan 2022 19:26:48: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 19:26:48: #1 finished! INFO @ Sat, 15 Jan 2022 19:26:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:26:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:26:48: #2 number of paired peaks: 46 WARNING @ Sat, 15 Jan 2022 19:26:48: Too few paired peaks (46) 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 19:26:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.05_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/SRX11781027/SRX11781027.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:26:51: 6000000 INFO @ Sat, 15 Jan 2022 19:26:54: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:26:59: 7000000 INFO @ Sat, 15 Jan 2022 19:27:02: 11000000 INFO @ Sat, 15 Jan 2022 19:27:08: 8000000 INFO @ Sat, 15 Jan 2022 19:27:10: 12000000 INFO @ Sat, 15 Jan 2022 19:27:16: 9000000 INFO @ Sat, 15 Jan 2022 19:27:18: 13000000 INFO @ Sat, 15 Jan 2022 19:27:21: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:27:21: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:27:21: #1 total tags in treatment: 6153745 INFO @ Sat, 15 Jan 2022 19:27:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:27:21: #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 19:27:21: #1 tags after filtering in treatment: 4431894 INFO @ Sat, 15 Jan 2022 19:27:21: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 19:27:21: #1 finished! INFO @ Sat, 15 Jan 2022 19:27:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:27:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:27:22: #2 number of paired peaks: 46 WARNING @ Sat, 15 Jan 2022 19:27:22: Too few paired peaks (46) 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 19:27:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.10_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/SRX11781027/SRX11781027.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:27:24: 10000000 INFO @ Sat, 15 Jan 2022 19:27:32: 11000000 INFO @ Sat, 15 Jan 2022 19:27:40: 12000000 INFO @ Sat, 15 Jan 2022 19:27:48: 13000000 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: 6153745 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: 4431894 INFO @ Sat, 15 Jan 2022 19:27:51: #1 Redundant rate of treatment: 0.28 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: 46 WARNING @ Sat, 15 Jan 2022 19:27:51: Too few paired peaks (46) 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/SRX11781027/SRX11781027.20_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/SRX11781027/SRX11781027.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781027/SRX11781027.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling