Job ID = 5791665 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,177,736 reads read : 64,355,472 reads written : 64,355,472 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:21:17 32177736 reads; of these: 32177736 (100.00%) were paired; of these: 2216595 (6.89%) aligned concordantly 0 times 25417101 (78.99%) aligned concordantly exactly 1 time 4544040 (14.12%) aligned concordantly >1 times ---- 2216595 pairs aligned concordantly 0 times; of these: 24704 (1.11%) aligned discordantly 1 time ---- 2191891 pairs aligned 0 times concordantly or discordantly; of these: 4383782 mates make up the pairs; of these: 3699186 (84.38%) aligned 0 times 562369 (12.83%) aligned exactly 1 time 122227 (2.79%) aligned >1 times 94.25% overall alignment rate Time searching: 00:21:17 Overall time: 00:21:17 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] 10222110 / 29970525 = 0.3411 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 11:07:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.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 @ Wed, 22 Apr 2020 11:07:20: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:07:20: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:07:25: 1000000 INFO @ Wed, 22 Apr 2020 11:07:30: 2000000 INFO @ Wed, 22 Apr 2020 11:07:36: 3000000 INFO @ Wed, 22 Apr 2020 11:07:41: 4000000 INFO @ Wed, 22 Apr 2020 11:07:46: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 11:07:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.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 @ Wed, 22 Apr 2020 11:07:50: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:07:50: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:07:51: 6000000 INFO @ Wed, 22 Apr 2020 11:07:55: 1000000 INFO @ Wed, 22 Apr 2020 11:07:57: 7000000 INFO @ Wed, 22 Apr 2020 11:08:00: 2000000 INFO @ Wed, 22 Apr 2020 11:08:02: 8000000 INFO @ Wed, 22 Apr 2020 11:08:05: 3000000 INFO @ Wed, 22 Apr 2020 11:08:08: 9000000 INFO @ Wed, 22 Apr 2020 11:08:10: 4000000 INFO @ Wed, 22 Apr 2020 11:08:14: 10000000 INFO @ Wed, 22 Apr 2020 11:08:15: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 11:08:19: 11000000 INFO @ Wed, 22 Apr 2020 11:08:19: 6000000 INFO @ Wed, 22 Apr 2020 11:08:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.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 @ Wed, 22 Apr 2020 11:08:20: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:08:20: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:08:24: 7000000 INFO @ Wed, 22 Apr 2020 11:08:25: 12000000 INFO @ Wed, 22 Apr 2020 11:08:25: 1000000 INFO @ Wed, 22 Apr 2020 11:08:29: 8000000 INFO @ Wed, 22 Apr 2020 11:08:30: 2000000 INFO @ Wed, 22 Apr 2020 11:08:31: 13000000 INFO @ Wed, 22 Apr 2020 11:08:34: 9000000 INFO @ Wed, 22 Apr 2020 11:08:35: 3000000 INFO @ Wed, 22 Apr 2020 11:08:36: 14000000 INFO @ Wed, 22 Apr 2020 11:08:39: 10000000 INFO @ Wed, 22 Apr 2020 11:08:39: 4000000 INFO @ Wed, 22 Apr 2020 11:08:42: 15000000 INFO @ Wed, 22 Apr 2020 11:08:44: 11000000 INFO @ Wed, 22 Apr 2020 11:08:44: 5000000 INFO @ Wed, 22 Apr 2020 11:08:47: 16000000 INFO @ Wed, 22 Apr 2020 11:08:49: 12000000 INFO @ Wed, 22 Apr 2020 11:08:49: 6000000 INFO @ Wed, 22 Apr 2020 11:08:53: 17000000 INFO @ Wed, 22 Apr 2020 11:08:53: 13000000 INFO @ Wed, 22 Apr 2020 11:08:54: 7000000 INFO @ Wed, 22 Apr 2020 11:08:58: 14000000 INFO @ Wed, 22 Apr 2020 11:08:59: 18000000 INFO @ Wed, 22 Apr 2020 11:08:59: 8000000 INFO @ Wed, 22 Apr 2020 11:09:03: 15000000 INFO @ Wed, 22 Apr 2020 11:09:04: 9000000 INFO @ Wed, 22 Apr 2020 11:09:04: 19000000 INFO @ Wed, 22 Apr 2020 11:09:08: 16000000 INFO @ Wed, 22 Apr 2020 11:09:09: 10000000 INFO @ Wed, 22 Apr 2020 11:09:10: 20000000 INFO @ Wed, 22 Apr 2020 11:09:13: 17000000 INFO @ Wed, 22 Apr 2020 11:09:13: 11000000 INFO @ Wed, 22 Apr 2020 11:09:16: 21000000 INFO @ Wed, 22 Apr 2020 11:09:18: 18000000 INFO @ Wed, 22 Apr 2020 11:09:18: 12000000 INFO @ Wed, 22 Apr 2020 11:09:21: 22000000 INFO @ Wed, 22 Apr 2020 11:09:23: 19000000 INFO @ Wed, 22 Apr 2020 11:09:23: 13000000 INFO @ Wed, 22 Apr 2020 11:09:27: 23000000 INFO @ Wed, 22 Apr 2020 11:09:28: 20000000 INFO @ Wed, 22 Apr 2020 11:09:28: 14000000 INFO @ Wed, 22 Apr 2020 11:09:33: 21000000 INFO @ Wed, 22 Apr 2020 11:09:33: 24000000 INFO @ Wed, 22 Apr 2020 11:09:33: 15000000 INFO @ Wed, 22 Apr 2020 11:09:37: 22000000 INFO @ Wed, 22 Apr 2020 11:09:37: 16000000 INFO @ Wed, 22 Apr 2020 11:09:38: 25000000 INFO @ Wed, 22 Apr 2020 11:09:42: 17000000 INFO @ Wed, 22 Apr 2020 11:09:42: 23000000 INFO @ Wed, 22 Apr 2020 11:09:44: 26000000 INFO @ Wed, 22 Apr 2020 11:09:47: 18000000 INFO @ Wed, 22 Apr 2020 11:09:48: 24000000 INFO @ Wed, 22 Apr 2020 11:09:49: 27000000 INFO @ Wed, 22 Apr 2020 11:09:52: 19000000 INFO @ Wed, 22 Apr 2020 11:09:52: 25000000 INFO @ Wed, 22 Apr 2020 11:09:55: 28000000 INFO @ Wed, 22 Apr 2020 11:09:57: 20000000 INFO @ Wed, 22 Apr 2020 11:09:57: 26000000 INFO @ Wed, 22 Apr 2020 11:10:01: 29000000 INFO @ Wed, 22 Apr 2020 11:10:02: 21000000 INFO @ Wed, 22 Apr 2020 11:10:02: 27000000 INFO @ Wed, 22 Apr 2020 11:10:06: 22000000 INFO @ Wed, 22 Apr 2020 11:10:06: 30000000 INFO @ Wed, 22 Apr 2020 11:10:07: 28000000 INFO @ Wed, 22 Apr 2020 11:10:11: 23000000 INFO @ Wed, 22 Apr 2020 11:10:12: 29000000 INFO @ Wed, 22 Apr 2020 11:10:12: 31000000 INFO @ Wed, 22 Apr 2020 11:10:16: 24000000 INFO @ Wed, 22 Apr 2020 11:10:17: 30000000 INFO @ Wed, 22 Apr 2020 11:10:18: 32000000 INFO @ Wed, 22 Apr 2020 11:10:21: 25000000 INFO @ Wed, 22 Apr 2020 11:10:22: 31000000 INFO @ Wed, 22 Apr 2020 11:10:24: 33000000 INFO @ Wed, 22 Apr 2020 11:10:26: 26000000 INFO @ Wed, 22 Apr 2020 11:10:27: 32000000 INFO @ Wed, 22 Apr 2020 11:10:29: 34000000 INFO @ Wed, 22 Apr 2020 11:10:31: 27000000 INFO @ Wed, 22 Apr 2020 11:10:31: 33000000 INFO @ Wed, 22 Apr 2020 11:10:35: 35000000 INFO @ Wed, 22 Apr 2020 11:10:35: 28000000 INFO @ Wed, 22 Apr 2020 11:10:36: 34000000 INFO @ Wed, 22 Apr 2020 11:10:40: 29000000 INFO @ Wed, 22 Apr 2020 11:10:41: 36000000 INFO @ Wed, 22 Apr 2020 11:10:41: 35000000 INFO @ Wed, 22 Apr 2020 11:10:45: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 11:10:46: 36000000 INFO @ Wed, 22 Apr 2020 11:10:47: 37000000 INFO @ Wed, 22 Apr 2020 11:10:50: 31000000 INFO @ Wed, 22 Apr 2020 11:10:51: 37000000 INFO @ Wed, 22 Apr 2020 11:10:52: 38000000 INFO @ Wed, 22 Apr 2020 11:10:55: 32000000 INFO @ Wed, 22 Apr 2020 11:10:56: 38000000 INFO @ Wed, 22 Apr 2020 11:10:58: 39000000 INFO @ Wed, 22 Apr 2020 11:11:00: 33000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 11:11:01: 39000000 INFO @ Wed, 22 Apr 2020 11:11:04: 40000000 INFO @ Wed, 22 Apr 2020 11:11:04: 34000000 INFO @ Wed, 22 Apr 2020 11:11:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:05: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:05: #1 total tags in treatment: 19741493 INFO @ Wed, 22 Apr 2020 11:11:05: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 11:11:05: #1 tags after filtering in treatment: 10874181 INFO @ Wed, 22 Apr 2020 11:11:05: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Apr 2020 11:11:05: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:05: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:11:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:11:06: 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 @ Wed, 22 Apr 2020 11:11:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.05_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/SRX7409628/SRX7409628.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:11:06: 40000000 INFO @ Wed, 22 Apr 2020 11:11:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:07: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:07: #1 total tags in treatment: 19741493 INFO @ Wed, 22 Apr 2020 11:11:07: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 11:11:08: #1 tags after filtering in treatment: 10874181 INFO @ Wed, 22 Apr 2020 11:11:08: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Apr 2020 11:11:08: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:11:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:11:08: 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 @ Wed, 22 Apr 2020 11:11:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.10_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/SRX7409628/SRX7409628.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:11:09: 35000000 INFO @ Wed, 22 Apr 2020 11:11:14: 36000000 INFO @ Wed, 22 Apr 2020 11:11:18: 37000000 INFO @ Wed, 22 Apr 2020 11:11:23: 38000000 INFO @ Wed, 22 Apr 2020 11:11:28: 39000000 INFO @ Wed, 22 Apr 2020 11:11:32: 40000000 INFO @ Wed, 22 Apr 2020 11:11:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:33: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:33: #1 total tags in treatment: 19741493 INFO @ Wed, 22 Apr 2020 11:11:33: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 11:11:34: #1 tags after filtering in treatment: 10874181 INFO @ Wed, 22 Apr 2020 11:11:34: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Apr 2020 11:11:34: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:34: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:11:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:11:34: 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 @ Wed, 22 Apr 2020 11:11:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.20_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/SRX7409628/SRX7409628.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409628/SRX7409628.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling