Job ID = 14520477 SRX = SRX11781041 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:11:52 prefetch.2.10.7: 1) Downloading 'SRR15480984'... 2022-01-15T10:11:52 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:12:38 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:12:38 prefetch.2.10.7: 1) 'SRR15480984' was downloaded successfully 2022-01-15T10:12:38 prefetch.2.10.7: 'SRR15480984' has 0 unresolved dependencies Read 10760976 spots for SRR15480984/SRR15480984.sra Written 10760976 spots for SRR15480984/SRR15480984.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: 00:13:22 10760976 reads; of these: 10760976 (100.00%) were paired; of these: 1619525 (15.05%) aligned concordantly 0 times 6501723 (60.42%) aligned concordantly exactly 1 time 2639728 (24.53%) aligned concordantly >1 times ---- 1619525 pairs aligned concordantly 0 times; of these: 325075 (20.07%) aligned discordantly 1 time ---- 1294450 pairs aligned 0 times concordantly or discordantly; of these: 2588900 mates make up the pairs; of these: 1840622 (71.10%) aligned 0 times 375199 (14.49%) aligned exactly 1 time 373079 (14.41%) aligned >1 times 91.45% overall alignment rate Time searching: 00:13:22 Overall time: 00:13:22 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] 1177507 / 9405492 = 0.1252 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 19:35:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.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 19:35:21: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:35:21: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:35:30: 1000000 INFO @ Sat, 15 Jan 2022 19:35:39: 2000000 INFO @ Sat, 15 Jan 2022 19:35:47: 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 19:35:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.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 19:35:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:35:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:35:56: 4000000 INFO @ Sat, 15 Jan 2022 19:36:00: 1000000 INFO @ Sat, 15 Jan 2022 19:36:05: 5000000 INFO @ Sat, 15 Jan 2022 19:36:09: 2000000 INFO @ Sat, 15 Jan 2022 19:36:13: 6000000 INFO @ Sat, 15 Jan 2022 19:36:18: 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 19:36:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.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 19:36:21: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:36:21: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:36:22: 7000000 INFO @ Sat, 15 Jan 2022 19:36:26: 4000000 INFO @ Sat, 15 Jan 2022 19:36:31: 8000000 INFO @ Sat, 15 Jan 2022 19:36:33: 1000000 INFO @ Sat, 15 Jan 2022 19:36:35: 5000000 INFO @ Sat, 15 Jan 2022 19:36:40: 9000000 INFO @ Sat, 15 Jan 2022 19:36:44: 2000000 INFO @ Sat, 15 Jan 2022 19:36:44: 6000000 INFO @ Sat, 15 Jan 2022 19:36:49: 10000000 INFO @ Sat, 15 Jan 2022 19:36:53: 7000000 INFO @ Sat, 15 Jan 2022 19:36:55: 3000000 INFO @ Sat, 15 Jan 2022 19:36:58: 11000000 INFO @ Sat, 15 Jan 2022 19:37:03: 8000000 INFO @ Sat, 15 Jan 2022 19:37:05: 4000000 INFO @ Sat, 15 Jan 2022 19:37:07: 12000000 INFO @ Sat, 15 Jan 2022 19:37:11: 9000000 INFO @ Sat, 15 Jan 2022 19:37:14: 5000000 INFO @ Sat, 15 Jan 2022 19:37:16: 13000000 INFO @ Sat, 15 Jan 2022 19:37:21: 10000000 INFO @ Sat, 15 Jan 2022 19:37:23: 6000000 INFO @ Sat, 15 Jan 2022 19:37:25: 14000000 INFO @ Sat, 15 Jan 2022 19:37:30: 11000000 INFO @ Sat, 15 Jan 2022 19:37:32: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:37:34: 15000000 INFO @ Sat, 15 Jan 2022 19:37:39: 12000000 INFO @ Sat, 15 Jan 2022 19:37:41: 8000000 INFO @ Sat, 15 Jan 2022 19:37:43: 16000000 INFO @ Sat, 15 Jan 2022 19:37:48: 13000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:37:50: 9000000 INFO @ Sat, 15 Jan 2022 19:37:52: 17000000 INFO @ Sat, 15 Jan 2022 19:37:55: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:37:55: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:37:55: #1 total tags in treatment: 7984856 INFO @ Sat, 15 Jan 2022 19:37:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:37:55: #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 19:37:55: #1 tags after filtering in treatment: 5039528 INFO @ Sat, 15 Jan 2022 19:37:55: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 19:37:55: #1 finished! INFO @ Sat, 15 Jan 2022 19:37:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:37:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:37:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:37:56: 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 19:37:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.05_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/SRX11781041/SRX11781041.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:37:57: 14000000 INFO @ Sat, 15 Jan 2022 19:37:59: 10000000 INFO @ Sat, 15 Jan 2022 19:38:06: 15000000 INFO @ Sat, 15 Jan 2022 19:38:08: 11000000 INFO @ Sat, 15 Jan 2022 19:38:14: 16000000 INFO @ Sat, 15 Jan 2022 19:38:16: 12000000 INFO @ Sat, 15 Jan 2022 19:38:23: 17000000 INFO @ Sat, 15 Jan 2022 19:38:25: 13000000 INFO @ Sat, 15 Jan 2022 19:38:26: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:38:26: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:38:26: #1 total tags in treatment: 7984856 INFO @ Sat, 15 Jan 2022 19:38:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:38:26: #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 19:38:26: #1 tags after filtering in treatment: 5039528 INFO @ Sat, 15 Jan 2022 19:38:26: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 19:38:26: #1 finished! INFO @ Sat, 15 Jan 2022 19:38:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:38:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:38:26: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:38:26: 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 19:38:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.10_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/SRX11781041/SRX11781041.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:38:34: 14000000 INFO @ Sat, 15 Jan 2022 19:38:42: 15000000 INFO @ Sat, 15 Jan 2022 19:38:51: 16000000 INFO @ Sat, 15 Jan 2022 19:38:59: 17000000 INFO @ Sat, 15 Jan 2022 19:39:01: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:39:01: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:39:01: #1 total tags in treatment: 7984856 INFO @ Sat, 15 Jan 2022 19:39:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:39:01: #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 19:39:02: #1 tags after filtering in treatment: 5039528 INFO @ Sat, 15 Jan 2022 19:39:02: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 19:39:02: #1 finished! INFO @ Sat, 15 Jan 2022 19:39:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:39:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:39:02: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:39:02: 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 19:39:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.20_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/SRX11781041/SRX11781041.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781041/SRX11781041.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling