Job ID = 12531678 SRX = SRX4555050 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12679704 spots for SRR7696749/SRR7696749.sra Written 12679704 spots for SRR7696749/SRR7696749.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: 00:19:24 12679704 reads; of these: 12679704 (100.00%) were paired; of these: 826659 (6.52%) aligned concordantly 0 times 5960224 (47.01%) aligned concordantly exactly 1 time 5892821 (46.47%) aligned concordantly >1 times ---- 826659 pairs aligned concordantly 0 times; of these: 57253 (6.93%) aligned discordantly 1 time ---- 769406 pairs aligned 0 times concordantly or discordantly; of these: 1538812 mates make up the pairs; of these: 1212983 (78.83%) aligned 0 times 165851 (10.78%) aligned exactly 1 time 159978 (10.40%) aligned >1 times 95.22% overall alignment rate Time searching: 00:19:24 Overall time: 00:19:24 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 16 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] 2338710 / 5974129 = 0.3915 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 09:35:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.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 09:35:37: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:35:37: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:35:45: 1000000 INFO @ Sat, 17 Apr 2021 09:35:54: 2000000 INFO @ Sat, 17 Apr 2021 09:36:03: 3000000 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 09:36:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.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 09:36:07: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:36:07: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:36:13: 4000000 INFO @ Sat, 17 Apr 2021 09:36:21: 1000000 INFO @ Sat, 17 Apr 2021 09:36:23: 5000000 INFO @ Sat, 17 Apr 2021 09:36:33: 6000000 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 09:36:35: 2000000 INFO @ Sat, 17 Apr 2021 09:36:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.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 09:36:37: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:36:37: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:36:43: 7000000 INFO @ Sat, 17 Apr 2021 09:36:49: 3000000 INFO @ Sat, 17 Apr 2021 09:36:54: 8000000 INFO @ Sat, 17 Apr 2021 09:36:55: 1000000 INFO @ Sat, 17 Apr 2021 09:37:04: 9000000 INFO @ Sat, 17 Apr 2021 09:37:06: 4000000 INFO @ Sat, 17 Apr 2021 09:37:13: 10000000 INFO @ Sat, 17 Apr 2021 09:37:14: 2000000 INFO @ Sat, 17 Apr 2021 09:37:19: 5000000 INFO @ Sat, 17 Apr 2021 09:37:22: 11000000 INFO @ Sat, 17 Apr 2021 09:37:29: 12000000 INFO @ Sat, 17 Apr 2021 09:37:30: 6000000 INFO @ Sat, 17 Apr 2021 09:37:31: 3000000 INFO @ Sat, 17 Apr 2021 09:37:37: 13000000 INFO @ Sat, 17 Apr 2021 09:37:41: 7000000 INFO @ Sat, 17 Apr 2021 09:37:44: 14000000 INFO @ Sat, 17 Apr 2021 09:37:48: 4000000 INFO @ Sat, 17 Apr 2021 09:37:51: 15000000 INFO @ Sat, 17 Apr 2021 09:37:54: 8000000 INFO @ Sat, 17 Apr 2021 09:37:59: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:38:05: 5000000 INFO @ Sat, 17 Apr 2021 09:38:06: 9000000 INFO @ Sat, 17 Apr 2021 09:38:07: 17000000 INFO @ Sat, 17 Apr 2021 09:38:15: 18000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:38:18: 6000000 INFO @ Sat, 17 Apr 2021 09:38:20: 10000000 INFO @ Sat, 17 Apr 2021 09:38:22: 19000000 INFO @ Sat, 17 Apr 2021 09:38:26: #1 tag size is determined as 92 bps INFO @ Sat, 17 Apr 2021 09:38:26: #1 tag size = 92 INFO @ Sat, 17 Apr 2021 09:38:26: #1 total tags in treatment: 9517927 INFO @ Sat, 17 Apr 2021 09:38:26: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:38:26: #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 09:38:26: #1 tags after filtering in treatment: 2638764 INFO @ Sat, 17 Apr 2021 09:38:26: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:38:26: #1 finished! INFO @ Sat, 17 Apr 2021 09:38:26: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:38:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:38:26: #2 number of paired peaks: 61 WARNING @ Sat, 17 Apr 2021 09:38:26: Too few paired peaks (61) 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 09:38:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:38:30: 7000000 INFO @ Sat, 17 Apr 2021 09:38:32: 11000000 INFO @ Sat, 17 Apr 2021 09:38:43: 8000000 INFO @ Sat, 17 Apr 2021 09:38:44: 12000000 INFO @ Sat, 17 Apr 2021 09:38:55: 9000000 INFO @ Sat, 17 Apr 2021 09:38:56: 13000000 INFO @ Sat, 17 Apr 2021 09:39:06: 14000000 INFO @ Sat, 17 Apr 2021 09:39:07: 10000000 INFO @ Sat, 17 Apr 2021 09:39:16: 15000000 INFO @ Sat, 17 Apr 2021 09:39:19: 11000000 INFO @ Sat, 17 Apr 2021 09:39:27: 16000000 INFO @ Sat, 17 Apr 2021 09:39:31: 12000000 INFO @ Sat, 17 Apr 2021 09:39:38: 17000000 INFO @ Sat, 17 Apr 2021 09:39:43: 13000000 INFO @ Sat, 17 Apr 2021 09:39:49: 18000000 INFO @ Sat, 17 Apr 2021 09:39:55: 14000000 INFO @ Sat, 17 Apr 2021 09:39:59: 19000000 INFO @ Sat, 17 Apr 2021 09:40:05: #1 tag size is determined as 92 bps INFO @ Sat, 17 Apr 2021 09:40:05: #1 tag size = 92 INFO @ Sat, 17 Apr 2021 09:40:05: #1 total tags in treatment: 9517927 INFO @ Sat, 17 Apr 2021 09:40:05: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:40:05: #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 09:40:05: #1 tags after filtering in treatment: 2638764 INFO @ Sat, 17 Apr 2021 09:40:05: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:40:05: #1 finished! INFO @ Sat, 17 Apr 2021 09:40:05: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:40:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:40:05: #2 number of paired peaks: 61 WARNING @ Sat, 17 Apr 2021 09:40:05: Too few paired peaks (61) 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 09:40:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.10_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/SRX4555050/SRX4555050.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:40:07: 15000000 INFO @ Sat, 17 Apr 2021 09:40:17: 16000000 INFO @ Sat, 17 Apr 2021 09:40:30: 17000000 INFO @ Sat, 17 Apr 2021 09:40:44: 18000000 INFO @ Sat, 17 Apr 2021 09:40:55: 19000000 INFO @ Sat, 17 Apr 2021 09:41:02: #1 tag size is determined as 92 bps INFO @ Sat, 17 Apr 2021 09:41:02: #1 tag size = 92 INFO @ Sat, 17 Apr 2021 09:41:02: #1 total tags in treatment: 9517927 INFO @ Sat, 17 Apr 2021 09:41:02: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:41:02: #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 09:41:02: #1 tags after filtering in treatment: 2638764 INFO @ Sat, 17 Apr 2021 09:41:02: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:41:02: #1 finished! INFO @ Sat, 17 Apr 2021 09:41:02: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:41:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:41:02: #2 number of paired peaks: 61 WARNING @ Sat, 17 Apr 2021 09:41:02: Too few paired peaks (61) 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 09:41:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555050/SRX4555050.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling