Job ID = 5791620 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 26,661,956 reads read : 53,323,912 reads written : 53,323,912 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: 00:08:56 26661956 reads; of these: 26661956 (100.00%) were paired; of these: 10579829 (39.68%) aligned concordantly 0 times 14462766 (54.24%) aligned concordantly exactly 1 time 1619361 (6.07%) aligned concordantly >1 times ---- 10579829 pairs aligned concordantly 0 times; of these: 31845 (0.30%) aligned discordantly 1 time ---- 10547984 pairs aligned 0 times concordantly or discordantly; of these: 21095968 mates make up the pairs; of these: 20602628 (97.66%) aligned 0 times 431720 (2.05%) aligned exactly 1 time 61620 (0.29%) aligned >1 times 61.36% overall alignment rate Time searching: 00:08:56 Overall time: 00:08:56 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] 9350441 / 16089637 = 0.5811 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 10:06:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.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 10:06:29: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:06:29: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:06:35: 1000000 INFO @ Wed, 22 Apr 2020 10:06:41: 2000000 INFO @ Wed, 22 Apr 2020 10:06:48: 3000000 INFO @ Wed, 22 Apr 2020 10:06:54: 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 10:06:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.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 10:06:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:06:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:07:00: 5000000 INFO @ Wed, 22 Apr 2020 10:07:04: 1000000 INFO @ Wed, 22 Apr 2020 10:07:06: 6000000 INFO @ Wed, 22 Apr 2020 10:07:10: 2000000 INFO @ Wed, 22 Apr 2020 10:07:13: 7000000 INFO @ Wed, 22 Apr 2020 10:07:15: 3000000 INFO @ Wed, 22 Apr 2020 10:07:19: 8000000 INFO @ Wed, 22 Apr 2020 10:07:21: 4000000 INFO @ Wed, 22 Apr 2020 10:07:25: 9000000 INFO @ Wed, 22 Apr 2020 10:07:27: 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 10:07:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.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 10:07:29: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:07:29: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:07:31: 10000000 INFO @ Wed, 22 Apr 2020 10:07:32: 6000000 INFO @ Wed, 22 Apr 2020 10:07:37: 1000000 INFO @ Wed, 22 Apr 2020 10:07:38: 7000000 INFO @ Wed, 22 Apr 2020 10:07:38: 11000000 INFO @ Wed, 22 Apr 2020 10:07:43: 8000000 INFO @ Wed, 22 Apr 2020 10:07:45: 12000000 INFO @ Wed, 22 Apr 2020 10:07:45: 2000000 INFO @ Wed, 22 Apr 2020 10:07:49: 9000000 INFO @ Wed, 22 Apr 2020 10:07:52: 3000000 INFO @ Wed, 22 Apr 2020 10:07:54: 13000000 INFO @ Wed, 22 Apr 2020 10:07:54: 10000000 INFO @ Wed, 22 Apr 2020 10:08:00: 11000000 INFO @ Wed, 22 Apr 2020 10:08:01: 4000000 INFO @ Wed, 22 Apr 2020 10:08:05: 12000000 INFO @ Wed, 22 Apr 2020 10:08:06: 14000000 INFO @ Wed, 22 Apr 2020 10:08:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:08:06: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:08:06: #1 total tags in treatment: 6735191 INFO @ Wed, 22 Apr 2020 10:08:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:08:06: #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 10:08:06: #1 tags after filtering in treatment: 5551862 INFO @ Wed, 22 Apr 2020 10:08:06: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 10:08:06: #1 finished! INFO @ Wed, 22 Apr 2020 10:08:06: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:08:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:08:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:08:07: 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 10:08:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.05_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/SRX7409588/SRX7409588.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:08:08: 5000000 INFO @ Wed, 22 Apr 2020 10:08:11: 13000000 INFO @ Wed, 22 Apr 2020 10:08:14: 6000000 INFO @ Wed, 22 Apr 2020 10:08:18: 14000000 INFO @ Wed, 22 Apr 2020 10:08:18: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:08:18: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:08:18: #1 total tags in treatment: 6735191 INFO @ Wed, 22 Apr 2020 10:08:18: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:08:18: #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 10:08:18: #1 tags after filtering in treatment: 5551862 INFO @ Wed, 22 Apr 2020 10:08:18: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 10:08:18: #1 finished! INFO @ Wed, 22 Apr 2020 10:08:18: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:08:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:08:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:08:19: 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 10:08:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.10_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/SRX7409588/SRX7409588.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:08:20: 7000000 INFO @ Wed, 22 Apr 2020 10:08:26: 8000000 INFO @ Wed, 22 Apr 2020 10:08:32: 9000000 INFO @ Wed, 22 Apr 2020 10:08:38: 10000000 INFO @ Wed, 22 Apr 2020 10:08:44: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:08:49: 12000000 INFO @ Wed, 22 Apr 2020 10:08:57: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:09:05: 14000000 INFO @ Wed, 22 Apr 2020 10:09:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:09:05: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:09:05: #1 total tags in treatment: 6735191 INFO @ Wed, 22 Apr 2020 10:09:05: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:09:05: #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 10:09:05: #1 tags after filtering in treatment: 5551862 INFO @ Wed, 22 Apr 2020 10:09:05: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 10:09:05: #1 finished! INFO @ Wed, 22 Apr 2020 10:09:05: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:09:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:09:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:09:06: 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 10:09:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.20_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/SRX7409588/SRX7409588.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409588/SRX7409588.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling