Job ID = 5791166 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,766,847 reads read : 25,533,694 reads written : 25,533,694 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: 00:14:13 12766847 reads; of these: 12766847 (100.00%) were paired; of these: 7405097 (58.00%) aligned concordantly 0 times 3883189 (30.42%) aligned concordantly exactly 1 time 1478561 (11.58%) aligned concordantly >1 times ---- 7405097 pairs aligned concordantly 0 times; of these: 2453528 (33.13%) aligned discordantly 1 time ---- 4951569 pairs aligned 0 times concordantly or discordantly; of these: 9903138 mates make up the pairs; of these: 7908463 (79.86%) aligned 0 times 235627 (2.38%) aligned exactly 1 time 1759048 (17.76%) aligned >1 times 69.03% overall alignment rate Time searching: 00:14:13 Overall time: 00:14:13 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] 1784792 / 7665370 = 0.2328 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 09:25:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.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 09:25:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:25:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:25:19: 1000000 INFO @ Wed, 22 Apr 2020 09:25:27: 2000000 INFO @ Wed, 22 Apr 2020 09:25:36: 3000000 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 09:25:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.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 09:25:40: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:25:40: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:25:45: 4000000 INFO @ Wed, 22 Apr 2020 09:25:48: 1000000 INFO @ Wed, 22 Apr 2020 09:25:54: 5000000 INFO @ Wed, 22 Apr 2020 09:25:56: 2000000 INFO @ Wed, 22 Apr 2020 09:26:03: 6000000 INFO @ Wed, 22 Apr 2020 09:26:04: 3000000 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 09:26:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.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 09:26:10: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:26:10: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:26:11: 4000000 INFO @ Wed, 22 Apr 2020 09:26:12: 7000000 INFO @ Wed, 22 Apr 2020 09:26:19: 5000000 INFO @ Wed, 22 Apr 2020 09:26:20: 1000000 INFO @ Wed, 22 Apr 2020 09:26:22: 8000000 INFO @ Wed, 22 Apr 2020 09:26:27: 6000000 INFO @ Wed, 22 Apr 2020 09:26:30: 2000000 INFO @ Wed, 22 Apr 2020 09:26:32: 9000000 INFO @ Wed, 22 Apr 2020 09:26:35: 7000000 INFO @ Wed, 22 Apr 2020 09:26:39: 3000000 INFO @ Wed, 22 Apr 2020 09:26:41: 10000000 INFO @ Wed, 22 Apr 2020 09:26:42: 8000000 INFO @ Wed, 22 Apr 2020 09:26:49: 4000000 INFO @ Wed, 22 Apr 2020 09:26:50: 9000000 INFO @ Wed, 22 Apr 2020 09:26:51: 11000000 INFO @ Wed, 22 Apr 2020 09:26:57: 10000000 INFO @ Wed, 22 Apr 2020 09:26:59: 5000000 INFO @ Wed, 22 Apr 2020 09:27:01: 12000000 INFO @ Wed, 22 Apr 2020 09:27:05: 11000000 INFO @ Wed, 22 Apr 2020 09:27:09: 6000000 INFO @ Wed, 22 Apr 2020 09:27:10: 13000000 INFO @ Wed, 22 Apr 2020 09:27:13: 12000000 INFO @ Wed, 22 Apr 2020 09:27:19: 7000000 INFO @ Wed, 22 Apr 2020 09:27:19: 14000000 INFO @ Wed, 22 Apr 2020 09:27:19: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:27:19: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:27:19: #1 total tags in treatment: 3963749 INFO @ Wed, 22 Apr 2020 09:27:19: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:27:19: #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 09:27:19: #1 tags after filtering in treatment: 2659217 INFO @ Wed, 22 Apr 2020 09:27:19: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Apr 2020 09:27:19: #1 finished! INFO @ Wed, 22 Apr 2020 09:27:19: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:27:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:27:20: #2 number of paired peaks: 26 WARNING @ Wed, 22 Apr 2020 09:27:20: Too few paired peaks (26) 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 09:27:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.05_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/SRX6614960/SRX6614960.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:27:22: 13000000 INFO @ Wed, 22 Apr 2020 09:27:28: 8000000 INFO @ Wed, 22 Apr 2020 09:27:31: 14000000 INFO @ Wed, 22 Apr 2020 09:27:31: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:27:31: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:27:31: #1 total tags in treatment: 3963749 INFO @ Wed, 22 Apr 2020 09:27:31: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:27:31: #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 09:27:31: #1 tags after filtering in treatment: 2659217 INFO @ Wed, 22 Apr 2020 09:27:31: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Apr 2020 09:27:31: #1 finished! INFO @ Wed, 22 Apr 2020 09:27:31: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:27:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:27:31: #2 number of paired peaks: 26 WARNING @ Wed, 22 Apr 2020 09:27:31: Too few paired peaks (26) 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 09:27:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.10_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/SRX6614960/SRX6614960.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:27:37: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:27:45: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:27:54: 11000000 INFO @ Wed, 22 Apr 2020 09:28:03: 12000000 INFO @ Wed, 22 Apr 2020 09:28:11: 13000000 INFO @ Wed, 22 Apr 2020 09:28:18: 14000000 INFO @ Wed, 22 Apr 2020 09:28:19: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:28:19: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:28:19: #1 total tags in treatment: 3963749 INFO @ Wed, 22 Apr 2020 09:28:19: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:28:19: #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 09:28:19: #1 tags after filtering in treatment: 2659217 INFO @ Wed, 22 Apr 2020 09:28:19: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Apr 2020 09:28:19: #1 finished! INFO @ Wed, 22 Apr 2020 09:28:19: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:28:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:28:19: #2 number of paired peaks: 26 WARNING @ Wed, 22 Apr 2020 09:28:19: Too few paired peaks (26) 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 09:28:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.20_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/SRX6614960/SRX6614960.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614960/SRX6614960.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling