Job ID = 5790852 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,212,240 reads read : 12,424,480 reads written : 12,424,480 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: 00:02:45 6212240 reads; of these: 6212240 (100.00%) were paired; of these: 110210 (1.77%) aligned concordantly 0 times 5083531 (81.83%) aligned concordantly exactly 1 time 1018499 (16.40%) aligned concordantly >1 times ---- 110210 pairs aligned concordantly 0 times; of these: 8385 (7.61%) aligned discordantly 1 time ---- 101825 pairs aligned 0 times concordantly or discordantly; of these: 203650 mates make up the pairs; of these: 165813 (81.42%) aligned 0 times 25956 (12.75%) aligned exactly 1 time 11881 (5.83%) aligned >1 times 98.67% overall alignment rate Time searching: 00:02:45 Overall time: 00:02:45 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_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] 173730 / 6104589 = 0.0285 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 08:00:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.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 08:00:51: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:00:51: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:00:57: 1000000 INFO @ Wed, 22 Apr 2020 08:01:03: 2000000 INFO @ Wed, 22 Apr 2020 08:01:08: 3000000 INFO @ Wed, 22 Apr 2020 08:01:13: 4000000 INFO @ Wed, 22 Apr 2020 08:01:18: 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 08:01:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.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 08:01:21: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:01:21: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:01:24: 6000000 INFO @ Wed, 22 Apr 2020 08:01:26: 1000000 INFO @ Wed, 22 Apr 2020 08:01:29: 7000000 INFO @ Wed, 22 Apr 2020 08:01:31: 2000000 INFO @ Wed, 22 Apr 2020 08:01:35: 8000000 INFO @ Wed, 22 Apr 2020 08:01:36: 3000000 INFO @ Wed, 22 Apr 2020 08:01:41: 9000000 INFO @ Wed, 22 Apr 2020 08:01:41: 4000000 INFO @ Wed, 22 Apr 2020 08:01:46: 10000000 INFO @ Wed, 22 Apr 2020 08:01:46: 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 08:01:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.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 08:01:51: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:01:51: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:01:51: 6000000 INFO @ Wed, 22 Apr 2020 08:01:52: 11000000 INFO @ Wed, 22 Apr 2020 08:01:56: 1000000 INFO @ Wed, 22 Apr 2020 08:01:56: 7000000 INFO @ Wed, 22 Apr 2020 08:01:57: #1 tag size is determined as 36 bps INFO @ Wed, 22 Apr 2020 08:01:57: #1 tag size = 36 INFO @ Wed, 22 Apr 2020 08:01:57: #1 total tags in treatment: 5928408 INFO @ Wed, 22 Apr 2020 08:01:57: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:01:57: #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 08:01:57: #1 tags after filtering in treatment: 4732378 INFO @ Wed, 22 Apr 2020 08:01:57: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Apr 2020 08:01:57: #1 finished! INFO @ Wed, 22 Apr 2020 08:01:57: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:01:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:01:57: #2 number of paired peaks: 26 WARNING @ Wed, 22 Apr 2020 08:01:57: 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 08:01:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.05_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/SRX5521500/SRX5521500.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:02:01: 2000000 INFO @ Wed, 22 Apr 2020 08:02:01: 8000000 INFO @ Wed, 22 Apr 2020 08:02:06: 3000000 INFO @ Wed, 22 Apr 2020 08:02:06: 9000000 INFO @ Wed, 22 Apr 2020 08:02:11: 10000000 INFO @ Wed, 22 Apr 2020 08:02:11: 4000000 INFO @ Wed, 22 Apr 2020 08:02:16: 11000000 INFO @ Wed, 22 Apr 2020 08:02:16: 5000000 INFO @ Wed, 22 Apr 2020 08:02:20: #1 tag size is determined as 36 bps INFO @ Wed, 22 Apr 2020 08:02:20: #1 tag size = 36 INFO @ Wed, 22 Apr 2020 08:02:20: #1 total tags in treatment: 5928408 INFO @ Wed, 22 Apr 2020 08:02:20: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:02:20: #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 08:02:20: #1 tags after filtering in treatment: 4732378 INFO @ Wed, 22 Apr 2020 08:02:20: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Apr 2020 08:02:20: #1 finished! INFO @ Wed, 22 Apr 2020 08:02:20: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:02:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:02:21: #2 number of paired peaks: 26 WARNING @ Wed, 22 Apr 2020 08:02:21: 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 08:02:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.10_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/SRX5521500/SRX5521500.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:02:21: 6000000 INFO @ Wed, 22 Apr 2020 08:02:25: 7000000 INFO @ Wed, 22 Apr 2020 08:02:30: 8000000 INFO @ Wed, 22 Apr 2020 08:02:35: 9000000 INFO @ Wed, 22 Apr 2020 08:02:39: 10000000 INFO @ Wed, 22 Apr 2020 08:02:44: 11000000 INFO @ Wed, 22 Apr 2020 08:02:48: #1 tag size is determined as 36 bps INFO @ Wed, 22 Apr 2020 08:02:48: #1 tag size = 36 INFO @ Wed, 22 Apr 2020 08:02:48: #1 total tags in treatment: 5928408 INFO @ Wed, 22 Apr 2020 08:02:48: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:02:48: #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 08:02:48: #1 tags after filtering in treatment: 4732378 INFO @ Wed, 22 Apr 2020 08:02:48: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Apr 2020 08:02:48: #1 finished! INFO @ Wed, 22 Apr 2020 08:02:48: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:02:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:02:48: #2 number of paired peaks: 26 WARNING @ Wed, 22 Apr 2020 08:02:48: 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 08:02:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.20_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/SRX5521500/SRX5521500.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5521500/SRX5521500.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。