Job ID = 12531590 SRX = SRX3789222 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32403281 spots for SRR6833142/SRR6833142.sra Written 32403281 spots for SRR6833142/SRR6833142.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: 00:18:03 32403281 reads; of these: 32403281 (100.00%) were paired; of these: 5884344 (18.16%) aligned concordantly 0 times 16596915 (51.22%) aligned concordantly exactly 1 time 9922022 (30.62%) aligned concordantly >1 times ---- 5884344 pairs aligned concordantly 0 times; of these: 1992197 (33.86%) aligned discordantly 1 time ---- 3892147 pairs aligned 0 times concordantly or discordantly; of these: 7784294 mates make up the pairs; of these: 4157207 (53.41%) aligned 0 times 606479 (7.79%) aligned exactly 1 time 3020608 (38.80%) aligned >1 times 93.59% overall alignment rate Time searching: 00:18:03 Overall time: 00:18:03 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 28 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] 15963478 / 28161871 = 0.5668 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:51:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.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, 17 Apr 2021 08:51:51: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:51:51: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:51:57: 1000000 INFO @ Sat, 17 Apr 2021 08:52:03: 2000000 INFO @ Sat, 17 Apr 2021 08:52:09: 3000000 INFO @ Sat, 17 Apr 2021 08:52:15: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:52:21: 5000000 INFO @ Sat, 17 Apr 2021 08:52:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.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, 17 Apr 2021 08:52:21: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:52:21: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:52:27: 1000000 INFO @ Sat, 17 Apr 2021 08:52:27: 6000000 INFO @ Sat, 17 Apr 2021 08:52:34: 2000000 INFO @ Sat, 17 Apr 2021 08:52:34: 7000000 INFO @ Sat, 17 Apr 2021 08:52:40: 3000000 INFO @ Sat, 17 Apr 2021 08:52:40: 8000000 INFO @ Sat, 17 Apr 2021 08:52:47: 9000000 INFO @ Sat, 17 Apr 2021 08:52:47: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:52:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.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, 17 Apr 2021 08:52:51: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:52:51: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:52:53: 10000000 INFO @ Sat, 17 Apr 2021 08:52:53: 5000000 INFO @ Sat, 17 Apr 2021 08:52:57: 1000000 INFO @ Sat, 17 Apr 2021 08:53:00: 11000000 INFO @ Sat, 17 Apr 2021 08:53:00: 6000000 INFO @ Sat, 17 Apr 2021 08:53:04: 2000000 INFO @ Sat, 17 Apr 2021 08:53:06: 12000000 INFO @ Sat, 17 Apr 2021 08:53:06: 7000000 INFO @ Sat, 17 Apr 2021 08:53:11: 3000000 INFO @ Sat, 17 Apr 2021 08:53:12: 13000000 INFO @ Sat, 17 Apr 2021 08:53:13: 8000000 INFO @ Sat, 17 Apr 2021 08:53:17: 4000000 INFO @ Sat, 17 Apr 2021 08:53:19: 14000000 INFO @ Sat, 17 Apr 2021 08:53:19: 9000000 INFO @ Sat, 17 Apr 2021 08:53:24: 5000000 INFO @ Sat, 17 Apr 2021 08:53:25: 15000000 INFO @ Sat, 17 Apr 2021 08:53:26: 10000000 INFO @ Sat, 17 Apr 2021 08:53:30: 6000000 INFO @ Sat, 17 Apr 2021 08:53:32: 16000000 INFO @ Sat, 17 Apr 2021 08:53:32: 11000000 INFO @ Sat, 17 Apr 2021 08:53:37: 7000000 INFO @ Sat, 17 Apr 2021 08:53:38: 17000000 INFO @ Sat, 17 Apr 2021 08:53:38: 12000000 INFO @ Sat, 17 Apr 2021 08:53:43: 8000000 INFO @ Sat, 17 Apr 2021 08:53:45: 18000000 INFO @ Sat, 17 Apr 2021 08:53:45: 13000000 INFO @ Sat, 17 Apr 2021 08:53:50: 9000000 INFO @ Sat, 17 Apr 2021 08:53:51: 14000000 INFO @ Sat, 17 Apr 2021 08:53:51: 19000000 INFO @ Sat, 17 Apr 2021 08:53:56: 10000000 INFO @ Sat, 17 Apr 2021 08:53:57: 15000000 INFO @ Sat, 17 Apr 2021 08:53:58: 20000000 INFO @ Sat, 17 Apr 2021 08:54:03: 11000000 INFO @ Sat, 17 Apr 2021 08:54:04: 16000000 INFO @ Sat, 17 Apr 2021 08:54:04: 21000000 INFO @ Sat, 17 Apr 2021 08:54:09: 12000000 INFO @ Sat, 17 Apr 2021 08:54:10: 17000000 INFO @ Sat, 17 Apr 2021 08:54:11: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 08:54:16: 13000000 INFO @ Sat, 17 Apr 2021 08:54:16: 18000000 INFO @ Sat, 17 Apr 2021 08:54:17: 23000000 INFO @ Sat, 17 Apr 2021 08:54:22: 14000000 INFO @ Sat, 17 Apr 2021 08:54:22: 19000000 INFO @ Sat, 17 Apr 2021 08:54:24: 24000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 08:54:28: 15000000 INFO @ Sat, 17 Apr 2021 08:54:28: 20000000 INFO @ Sat, 17 Apr 2021 08:54:31: 25000000 INFO @ Sat, 17 Apr 2021 08:54:34: 21000000 INFO @ Sat, 17 Apr 2021 08:54:35: 16000000 INFO @ Sat, 17 Apr 2021 08:54:37: 26000000 INFO @ Sat, 17 Apr 2021 08:54:41: 22000000 INFO @ Sat, 17 Apr 2021 08:54:41: 17000000 INFO @ Sat, 17 Apr 2021 08:54:44: 27000000 INFO @ Sat, 17 Apr 2021 08:54:47: 23000000 INFO @ Sat, 17 Apr 2021 08:54:47: 18000000 INFO @ Sat, 17 Apr 2021 08:54:50: 28000000 INFO @ Sat, 17 Apr 2021 08:54:53: 24000000 INFO @ Sat, 17 Apr 2021 08:54:54: 19000000 INFO @ Sat, 17 Apr 2021 08:54:55: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 08:54:55: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 08:54:55: #1 total tags in treatment: 11340301 INFO @ Sat, 17 Apr 2021 08:54:55: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:54:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:54:55: #1 tags after filtering in treatment: 4362873 INFO @ Sat, 17 Apr 2021 08:54:55: #1 Redundant rate of treatment: 0.62 INFO @ Sat, 17 Apr 2021 08:54:55: #1 finished! INFO @ Sat, 17 Apr 2021 08:54:55: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:54:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:54:56: #2 number of paired peaks: 33 WARNING @ Sat, 17 Apr 2021 08:54:56: Too few paired peaks (33) 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, 17 Apr 2021 08:54:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.05_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/SRX3789222/SRX3789222.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 08:55:00: 25000000 INFO @ Sat, 17 Apr 2021 08:55:00: 20000000 INFO @ Sat, 17 Apr 2021 08:55:06: 26000000 INFO @ Sat, 17 Apr 2021 08:55:06: 21000000 INFO @ Sat, 17 Apr 2021 08:55:12: 27000000 INFO @ Sat, 17 Apr 2021 08:55:12: 22000000 INFO @ Sat, 17 Apr 2021 08:55:18: 28000000 INFO @ Sat, 17 Apr 2021 08:55:19: 23000000 INFO @ Sat, 17 Apr 2021 08:55:23: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 08:55:23: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 08:55:23: #1 total tags in treatment: 11340301 INFO @ Sat, 17 Apr 2021 08:55:23: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:55:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:55:23: #1 tags after filtering in treatment: 4362873 INFO @ Sat, 17 Apr 2021 08:55:23: #1 Redundant rate of treatment: 0.62 INFO @ Sat, 17 Apr 2021 08:55:23: #1 finished! INFO @ Sat, 17 Apr 2021 08:55:23: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:55:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:55:24: #2 number of paired peaks: 33 WARNING @ Sat, 17 Apr 2021 08:55:24: Too few paired peaks (33) 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, 17 Apr 2021 08:55:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.10_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/SRX3789222/SRX3789222.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 08:55:25: 24000000 INFO @ Sat, 17 Apr 2021 08:55:30: 25000000 INFO @ Sat, 17 Apr 2021 08:55:36: 26000000 INFO @ Sat, 17 Apr 2021 08:55:42: 27000000 INFO @ Sat, 17 Apr 2021 08:55:48: 28000000 INFO @ Sat, 17 Apr 2021 08:55:52: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 08:55:52: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 08:55:52: #1 total tags in treatment: 11340301 INFO @ Sat, 17 Apr 2021 08:55:52: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:55:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:55:52: #1 tags after filtering in treatment: 4362873 INFO @ Sat, 17 Apr 2021 08:55:52: #1 Redundant rate of treatment: 0.62 INFO @ Sat, 17 Apr 2021 08:55:52: #1 finished! INFO @ Sat, 17 Apr 2021 08:55:52: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:55:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:55:52: #2 number of paired peaks: 33 WARNING @ Sat, 17 Apr 2021 08:55:52: Too few paired peaks (33) 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, 17 Apr 2021 08:55:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.20_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/SRX3789222/SRX3789222.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789222/SRX3789222.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling