Job ID = 5791633 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,034,813 reads read : 64,069,626 reads written : 64,069,626 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: 00:17:19 32034813 reads; of these: 32034813 (100.00%) were paired; of these: 1175112 (3.67%) aligned concordantly 0 times 27993637 (87.39%) aligned concordantly exactly 1 time 2866064 (8.95%) aligned concordantly >1 times ---- 1175112 pairs aligned concordantly 0 times; of these: 65958 (5.61%) aligned discordantly 1 time ---- 1109154 pairs aligned 0 times concordantly or discordantly; of these: 2218308 mates make up the pairs; of these: 1962768 (88.48%) aligned 0 times 206190 (9.29%) aligned exactly 1 time 49350 (2.22%) aligned >1 times 96.94% overall alignment rate Time searching: 00:17:19 Overall time: 00:17:19 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] 12822918 / 30869603 = 0.4154 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 10:32:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.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 10:32:12: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:32:12: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:32:17: 1000000 INFO @ Wed, 22 Apr 2020 10:32:23: 2000000 INFO @ Wed, 22 Apr 2020 10:32:28: 3000000 INFO @ Wed, 22 Apr 2020 10:32:34: 4000000 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 10:32:39: 5000000 INFO @ Wed, 22 Apr 2020 10:32:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.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 10:32:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:32:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:32:45: 6000000 INFO @ Wed, 22 Apr 2020 10:32:46: 1000000 INFO @ Wed, 22 Apr 2020 10:32:50: 7000000 INFO @ Wed, 22 Apr 2020 10:32:51: 2000000 INFO @ Wed, 22 Apr 2020 10:32:56: 8000000 INFO @ Wed, 22 Apr 2020 10:32:56: 3000000 INFO @ Wed, 22 Apr 2020 10:33:02: 4000000 INFO @ Wed, 22 Apr 2020 10:33:02: 9000000 INFO @ Wed, 22 Apr 2020 10:33:07: 5000000 INFO @ Wed, 22 Apr 2020 10:33:08: 10000000 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 10:33:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.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 10:33:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:33:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:33:12: 6000000 INFO @ Wed, 22 Apr 2020 10:33:13: 11000000 INFO @ Wed, 22 Apr 2020 10:33:16: 1000000 INFO @ Wed, 22 Apr 2020 10:33:17: 7000000 INFO @ Wed, 22 Apr 2020 10:33:19: 12000000 INFO @ Wed, 22 Apr 2020 10:33:21: 2000000 INFO @ Wed, 22 Apr 2020 10:33:23: 8000000 INFO @ Wed, 22 Apr 2020 10:33:25: 13000000 INFO @ Wed, 22 Apr 2020 10:33:26: 3000000 INFO @ Wed, 22 Apr 2020 10:33:28: 9000000 INFO @ Wed, 22 Apr 2020 10:33:30: 14000000 INFO @ Wed, 22 Apr 2020 10:33:31: 4000000 INFO @ Wed, 22 Apr 2020 10:33:33: 10000000 INFO @ Wed, 22 Apr 2020 10:33:36: 5000000 INFO @ Wed, 22 Apr 2020 10:33:36: 15000000 INFO @ Wed, 22 Apr 2020 10:33:38: 11000000 INFO @ Wed, 22 Apr 2020 10:33:40: 6000000 INFO @ Wed, 22 Apr 2020 10:33:41: 16000000 INFO @ Wed, 22 Apr 2020 10:33:43: 12000000 INFO @ Wed, 22 Apr 2020 10:33:45: 7000000 INFO @ Wed, 22 Apr 2020 10:33:46: 17000000 INFO @ Wed, 22 Apr 2020 10:33:48: 13000000 INFO @ Wed, 22 Apr 2020 10:33:50: 8000000 INFO @ Wed, 22 Apr 2020 10:33:52: 18000000 INFO @ Wed, 22 Apr 2020 10:33:53: 14000000 INFO @ Wed, 22 Apr 2020 10:33:55: 9000000 INFO @ Wed, 22 Apr 2020 10:33:57: 19000000 INFO @ Wed, 22 Apr 2020 10:33:58: 15000000 INFO @ Wed, 22 Apr 2020 10:34:00: 10000000 INFO @ Wed, 22 Apr 2020 10:34:03: 16000000 INFO @ Wed, 22 Apr 2020 10:34:03: 20000000 INFO @ Wed, 22 Apr 2020 10:34:05: 11000000 INFO @ Wed, 22 Apr 2020 10:34:08: 17000000 INFO @ Wed, 22 Apr 2020 10:34:09: 21000000 INFO @ Wed, 22 Apr 2020 10:34:10: 12000000 INFO @ Wed, 22 Apr 2020 10:34:13: 18000000 INFO @ Wed, 22 Apr 2020 10:34:14: 22000000 INFO @ Wed, 22 Apr 2020 10:34:15: 13000000 INFO @ Wed, 22 Apr 2020 10:34:18: 19000000 INFO @ Wed, 22 Apr 2020 10:34:20: 14000000 INFO @ Wed, 22 Apr 2020 10:34:20: 23000000 INFO @ Wed, 22 Apr 2020 10:34:23: 20000000 INFO @ Wed, 22 Apr 2020 10:34:25: 15000000 INFO @ Wed, 22 Apr 2020 10:34:26: 24000000 INFO @ Wed, 22 Apr 2020 10:34:28: 21000000 INFO @ Wed, 22 Apr 2020 10:34:30: 16000000 INFO @ Wed, 22 Apr 2020 10:34:32: 25000000 INFO @ Wed, 22 Apr 2020 10:34:33: 22000000 INFO @ Wed, 22 Apr 2020 10:34:35: 17000000 INFO @ Wed, 22 Apr 2020 10:34:37: 26000000 INFO @ Wed, 22 Apr 2020 10:34:39: 23000000 INFO @ Wed, 22 Apr 2020 10:34:39: 18000000 INFO @ Wed, 22 Apr 2020 10:34:43: 27000000 INFO @ Wed, 22 Apr 2020 10:34:44: 24000000 INFO @ Wed, 22 Apr 2020 10:34:44: 19000000 INFO @ Wed, 22 Apr 2020 10:34:49: 25000000 INFO @ Wed, 22 Apr 2020 10:34:49: 28000000 INFO @ Wed, 22 Apr 2020 10:34:49: 20000000 INFO @ Wed, 22 Apr 2020 10:34:53: 26000000 INFO @ Wed, 22 Apr 2020 10:34:54: 21000000 INFO @ Wed, 22 Apr 2020 10:34:55: 29000000 INFO @ Wed, 22 Apr 2020 10:34:58: 27000000 INFO @ Wed, 22 Apr 2020 10:34:59: 22000000 INFO @ Wed, 22 Apr 2020 10:35:01: 30000000 INFO @ Wed, 22 Apr 2020 10:35:03: 28000000 INFO @ Wed, 22 Apr 2020 10:35:04: 23000000 INFO @ Wed, 22 Apr 2020 10:35:07: 31000000 INFO @ Wed, 22 Apr 2020 10:35:08: 29000000 INFO @ Wed, 22 Apr 2020 10:35:09: 24000000 INFO @ Wed, 22 Apr 2020 10:35:12: 32000000 INFO @ Wed, 22 Apr 2020 10:35:13: 30000000 INFO @ Wed, 22 Apr 2020 10:35:14: 25000000 INFO @ Wed, 22 Apr 2020 10:35:18: 33000000 INFO @ Wed, 22 Apr 2020 10:35:18: 31000000 INFO @ Wed, 22 Apr 2020 10:35:19: 26000000 INFO @ Wed, 22 Apr 2020 10:35:23: 32000000 INFO @ Wed, 22 Apr 2020 10:35:24: 34000000 INFO @ Wed, 22 Apr 2020 10:35:24: 27000000 INFO @ Wed, 22 Apr 2020 10:35:28: 33000000 INFO @ Wed, 22 Apr 2020 10:35:29: 28000000 INFO @ Wed, 22 Apr 2020 10:35:29: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:35:33: 34000000 INFO @ Wed, 22 Apr 2020 10:35:34: 29000000 INFO @ Wed, 22 Apr 2020 10:35:35: 36000000 INFO @ Wed, 22 Apr 2020 10:35:38: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:35:38: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:35:38: #1 total tags in treatment: 18039689 INFO @ Wed, 22 Apr 2020 10:35:38: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:35:38: #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 10:35:38: #1 tags after filtering in treatment: 10044226 INFO @ Wed, 22 Apr 2020 10:35:38: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 10:35:38: #1 finished! INFO @ Wed, 22 Apr 2020 10:35:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:35:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:35:38: 35000000 INFO @ Wed, 22 Apr 2020 10:35:39: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:35:39: 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 10:35:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.05_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/SRX7409601/SRX7409601.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:35:39: 30000000 INFO @ Wed, 22 Apr 2020 10:35:43: 36000000 INFO @ Wed, 22 Apr 2020 10:35:44: 31000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:35:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:35:45: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:35:45: #1 total tags in treatment: 18039689 INFO @ Wed, 22 Apr 2020 10:35:45: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:35:45: #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 10:35:46: #1 tags after filtering in treatment: 10044226 INFO @ Wed, 22 Apr 2020 10:35:46: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 10:35:46: #1 finished! INFO @ Wed, 22 Apr 2020 10:35:46: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:35:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:35:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:35:46: 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 10:35:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:35:48: 32000000 INFO @ Wed, 22 Apr 2020 10:35:53: 33000000 INFO @ Wed, 22 Apr 2020 10:35:58: 34000000 INFO @ Wed, 22 Apr 2020 10:36:02: 35000000 INFO @ Wed, 22 Apr 2020 10:36:07: 36000000 INFO @ Wed, 22 Apr 2020 10:36:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:36:09: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:36:09: #1 total tags in treatment: 18039689 INFO @ Wed, 22 Apr 2020 10:36:09: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:36:09: #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 10:36:10: #1 tags after filtering in treatment: 10044226 INFO @ Wed, 22 Apr 2020 10:36:10: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 10:36:10: #1 finished! INFO @ Wed, 22 Apr 2020 10:36:10: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:36:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:36:10: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:36:10: 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 10:36:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.20_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/SRX7409601/SRX7409601.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409601/SRX7409601.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling