Job ID = 12531585 SRX = SRX3789218 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32097019 spots for SRR6833138/SRR6833138.sra Written 32097019 spots for SRR6833138/SRR6833138.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: 00:21:29 32097019 reads; of these: 32097019 (100.00%) were paired; of these: 5006964 (15.60%) aligned concordantly 0 times 17914461 (55.81%) aligned concordantly exactly 1 time 9175594 (28.59%) aligned concordantly >1 times ---- 5006964 pairs aligned concordantly 0 times; of these: 2014815 (40.24%) aligned discordantly 1 time ---- 2992149 pairs aligned 0 times concordantly or discordantly; of these: 5984298 mates make up the pairs; of these: 2719613 (45.45%) aligned 0 times 538376 (9.00%) aligned exactly 1 time 2726309 (45.56%) aligned >1 times 95.76% overall alignment rate Time searching: 00:21:29 Overall time: 00:21:29 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] 14429236 / 28793686 = 0.5011 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 08:57:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.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 08:57:02: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:57:02: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:57:08: 1000000 INFO @ Sat, 17 Apr 2021 08:57:14: 2000000 INFO @ Sat, 17 Apr 2021 08:57:20: 3000000 INFO @ Sat, 17 Apr 2021 08:57:26: 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 08:57:32: 5000000 INFO @ Sat, 17 Apr 2021 08:57:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.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 08:57:32: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:57:32: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:57:38: 6000000 INFO @ Sat, 17 Apr 2021 08:57:38: 1000000 INFO @ Sat, 17 Apr 2021 08:57:44: 2000000 INFO @ Sat, 17 Apr 2021 08:57:44: 7000000 INFO @ Sat, 17 Apr 2021 08:57:49: 3000000 INFO @ Sat, 17 Apr 2021 08:57:50: 8000000 INFO @ Sat, 17 Apr 2021 08:57:55: 4000000 INFO @ Sat, 17 Apr 2021 08:57:56: 9000000 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 08:58:01: 5000000 INFO @ Sat, 17 Apr 2021 08:58:02: 10000000 INFO @ Sat, 17 Apr 2021 08:58:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.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 08:58:02: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:58:02: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:58:06: 6000000 INFO @ Sat, 17 Apr 2021 08:58:08: 11000000 INFO @ Sat, 17 Apr 2021 08:58:09: 1000000 INFO @ Sat, 17 Apr 2021 08:58:12: 7000000 INFO @ Sat, 17 Apr 2021 08:58:14: 12000000 INFO @ Sat, 17 Apr 2021 08:58:17: 2000000 INFO @ Sat, 17 Apr 2021 08:58:17: 8000000 INFO @ Sat, 17 Apr 2021 08:58:21: 13000000 INFO @ Sat, 17 Apr 2021 08:58:23: 9000000 INFO @ Sat, 17 Apr 2021 08:58:24: 3000000 INFO @ Sat, 17 Apr 2021 08:58:27: 14000000 INFO @ Sat, 17 Apr 2021 08:58:28: 10000000 INFO @ Sat, 17 Apr 2021 08:58:32: 4000000 INFO @ Sat, 17 Apr 2021 08:58:34: 15000000 INFO @ Sat, 17 Apr 2021 08:58:34: 11000000 INFO @ Sat, 17 Apr 2021 08:58:39: 12000000 INFO @ Sat, 17 Apr 2021 08:58:40: 5000000 INFO @ Sat, 17 Apr 2021 08:58:40: 16000000 INFO @ Sat, 17 Apr 2021 08:58:45: 13000000 INFO @ Sat, 17 Apr 2021 08:58:46: 17000000 INFO @ Sat, 17 Apr 2021 08:58:47: 6000000 INFO @ Sat, 17 Apr 2021 08:58:51: 14000000 INFO @ Sat, 17 Apr 2021 08:58:53: 18000000 INFO @ Sat, 17 Apr 2021 08:58:54: 7000000 INFO @ Sat, 17 Apr 2021 08:58:57: 15000000 INFO @ Sat, 17 Apr 2021 08:58:59: 19000000 INFO @ Sat, 17 Apr 2021 08:59:01: 8000000 INFO @ Sat, 17 Apr 2021 08:59:02: 16000000 INFO @ Sat, 17 Apr 2021 08:59:05: 20000000 INFO @ Sat, 17 Apr 2021 08:59:08: 17000000 INFO @ Sat, 17 Apr 2021 08:59:08: 9000000 INFO @ Sat, 17 Apr 2021 08:59:12: 21000000 INFO @ Sat, 17 Apr 2021 08:59:14: 18000000 INFO @ Sat, 17 Apr 2021 08:59:15: 10000000 INFO @ Sat, 17 Apr 2021 08:59:18: 22000000 INFO @ Sat, 17 Apr 2021 08:59:20: 19000000 INFO @ Sat, 17 Apr 2021 08:59:22: 11000000 INFO @ Sat, 17 Apr 2021 08:59:24: 23000000 INFO @ Sat, 17 Apr 2021 08:59:25: 20000000 INFO @ Sat, 17 Apr 2021 08:59:29: 12000000 INFO @ Sat, 17 Apr 2021 08:59:30: 24000000 INFO @ Sat, 17 Apr 2021 08:59:31: 21000000 INFO @ Sat, 17 Apr 2021 08:59:36: 13000000 INFO @ Sat, 17 Apr 2021 08:59:36: 22000000 INFO @ Sat, 17 Apr 2021 08:59:37: 25000000 INFO @ Sat, 17 Apr 2021 08:59:42: 23000000 INFO @ Sat, 17 Apr 2021 08:59:42: 14000000 INFO @ Sat, 17 Apr 2021 08:59:43: 26000000 INFO @ Sat, 17 Apr 2021 08:59:48: 24000000 INFO @ Sat, 17 Apr 2021 08:59:49: 15000000 INFO @ Sat, 17 Apr 2021 08:59:49: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 08:59:53: 25000000 INFO @ Sat, 17 Apr 2021 08:59:55: 16000000 INFO @ Sat, 17 Apr 2021 08:59:56: 28000000 INFO @ Sat, 17 Apr 2021 08:59:59: 26000000 INFO @ Sat, 17 Apr 2021 09:00:02: 29000000 INFO @ Sat, 17 Apr 2021 09:00:02: 17000000 INFO @ Sat, 17 Apr 2021 09:00:05: 27000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:00:08: 30000000 INFO @ Sat, 17 Apr 2021 09:00:09: 18000000 INFO @ Sat, 17 Apr 2021 09:00:10: 28000000 INFO @ Sat, 17 Apr 2021 09:00:14: 31000000 INFO @ Sat, 17 Apr 2021 09:00:15: 19000000 INFO @ Sat, 17 Apr 2021 09:00:16: 29000000 INFO @ Sat, 17 Apr 2021 09:00:21: 32000000 INFO @ Sat, 17 Apr 2021 09:00:21: 20000000 INFO @ Sat, 17 Apr 2021 09:00:22: 30000000 INFO @ Sat, 17 Apr 2021 09:00:25: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 09:00:25: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 09:00:25: #1 total tags in treatment: 13239792 INFO @ Sat, 17 Apr 2021 09:00:25: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:00:25: #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 09:00:25: #1 tags after filtering in treatment: 5132184 INFO @ Sat, 17 Apr 2021 09:00:25: #1 Redundant rate of treatment: 0.61 INFO @ Sat, 17 Apr 2021 09:00:25: #1 finished! INFO @ Sat, 17 Apr 2021 09:00:25: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:00:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:00:25: #2 number of paired peaks: 0 WARNING @ Sat, 17 Apr 2021 09:00:25: 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, 17 Apr 2021 09:00:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.05_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/SRX3789218/SRX3789218.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:00:27: 21000000 INFO @ Sat, 17 Apr 2021 09:00:28: 31000000 INFO @ Sat, 17 Apr 2021 09:00:33: 32000000 INFO @ Sat, 17 Apr 2021 09:00:34: 22000000 INFO @ Sat, 17 Apr 2021 09:00:37: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 09:00:37: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 09:00:37: #1 total tags in treatment: 13239792 INFO @ Sat, 17 Apr 2021 09:00:37: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:00:37: #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 09:00:37: #1 tags after filtering in treatment: 5132184 INFO @ Sat, 17 Apr 2021 09:00:37: #1 Redundant rate of treatment: 0.61 INFO @ Sat, 17 Apr 2021 09:00:37: #1 finished! INFO @ Sat, 17 Apr 2021 09:00:37: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:00:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:00:37: #2 number of paired peaks: 0 WARNING @ Sat, 17 Apr 2021 09:00:37: 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, 17 Apr 2021 09:00:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.10_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/SRX3789218/SRX3789218.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:00:40: 23000000 INFO @ Sat, 17 Apr 2021 09:00:46: 24000000 INFO @ Sat, 17 Apr 2021 09:00:52: 25000000 INFO @ Sat, 17 Apr 2021 09:00:58: 26000000 INFO @ Sat, 17 Apr 2021 09:01:03: 27000000 INFO @ Sat, 17 Apr 2021 09:01:09: 28000000 INFO @ Sat, 17 Apr 2021 09:01:15: 29000000 INFO @ Sat, 17 Apr 2021 09:01:21: 30000000 INFO @ Sat, 17 Apr 2021 09:01:27: 31000000 INFO @ Sat, 17 Apr 2021 09:01:33: 32000000 INFO @ Sat, 17 Apr 2021 09:01:36: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 09:01:36: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 09:01:36: #1 total tags in treatment: 13239792 INFO @ Sat, 17 Apr 2021 09:01:36: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:01:36: #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 09:01:37: #1 tags after filtering in treatment: 5132184 INFO @ Sat, 17 Apr 2021 09:01:37: #1 Redundant rate of treatment: 0.61 INFO @ Sat, 17 Apr 2021 09:01:37: #1 finished! INFO @ Sat, 17 Apr 2021 09:01:37: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:01:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:01:37: #2 number of paired peaks: 0 WARNING @ Sat, 17 Apr 2021 09:01:37: 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, 17 Apr 2021 09:01:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.20_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/SRX3789218/SRX3789218.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789218/SRX3789218.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling