Job ID = 7111920 SRX = SRX8357673 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:15:55 prefetch.2.10.7: 1) Downloading 'SRR11806261'... 2020-07-22T05:15:55 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:16:51 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:16:51 prefetch.2.10.7: 'SRR11806261' is valid 2020-07-22T05:16:51 prefetch.2.10.7: 1) 'SRR11806261' was downloaded successfully 2020-07-22T05:16:51 prefetch.2.10.7: 'SRR11806261' has 0 unresolved dependencies Read 9211624 spots for SRR11806261/SRR11806261.sra Written 9211624 spots for SRR11806261/SRR11806261.sra 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: 00:04:05 9211624 reads; of these: 9211624 (100.00%) were paired; of these: 3486970 (37.85%) aligned concordantly 0 times 4362831 (47.36%) aligned concordantly exactly 1 time 1361823 (14.78%) aligned concordantly >1 times ---- 3486970 pairs aligned concordantly 0 times; of these: 17019 (0.49%) aligned discordantly 1 time ---- 3469951 pairs aligned 0 times concordantly or discordantly; of these: 6939902 mates make up the pairs; of these: 6839018 (98.55%) aligned 0 times 47216 (0.68%) aligned exactly 1 time 53668 (0.77%) aligned >1 times 62.88% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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] 1345712 / 5738279 = 0.2345 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 Jul 2020 14:24:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.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 Jul 2020 14:24:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:24:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:24:16: 1000000 INFO @ Wed, 22 Jul 2020 14:24:20: 2000000 INFO @ Wed, 22 Jul 2020 14:24:25: 3000000 INFO @ Wed, 22 Jul 2020 14:24:30: 4000000 INFO @ Wed, 22 Jul 2020 14:24:34: 5000000 INFO @ Wed, 22 Jul 2020 14:24:39: 6000000 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 Jul 2020 14:24:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.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 Jul 2020 14:24:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:24:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:24:44: 7000000 INFO @ Wed, 22 Jul 2020 14:24:46: 1000000 INFO @ Wed, 22 Jul 2020 14:24:48: 8000000 INFO @ Wed, 22 Jul 2020 14:24:51: 2000000 INFO @ Wed, 22 Jul 2020 14:24:53: #1 tag size is determined as 38 bps INFO @ Wed, 22 Jul 2020 14:24:53: #1 tag size = 38 INFO @ Wed, 22 Jul 2020 14:24:53: #1 total tags in treatment: 4380441 INFO @ Wed, 22 Jul 2020 14:24:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:24:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:24:53: #1 tags after filtering in treatment: 2819725 INFO @ Wed, 22 Jul 2020 14:24:53: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:24:53: #1 finished! INFO @ Wed, 22 Jul 2020 14:24:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:24:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:24:53: #2 number of paired peaks: 26 WARNING @ Wed, 22 Jul 2020 14:24:53: 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 Jul 2020 14:24:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.05_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/SRX8357673/SRX8357673.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:24:56: 3000000 INFO @ Wed, 22 Jul 2020 14:25:00: 4000000 INFO @ Wed, 22 Jul 2020 14:25:05: 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 Jul 2020 14:25:10: 6000000 INFO @ Wed, 22 Jul 2020 14:25:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.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 Jul 2020 14:25:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:25:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:25:14: 7000000 INFO @ Wed, 22 Jul 2020 14:25:16: 1000000 INFO @ Wed, 22 Jul 2020 14:25:19: 8000000 INFO @ Wed, 22 Jul 2020 14:25:21: 2000000 INFO @ Wed, 22 Jul 2020 14:25:23: #1 tag size is determined as 38 bps INFO @ Wed, 22 Jul 2020 14:25:23: #1 tag size = 38 INFO @ Wed, 22 Jul 2020 14:25:23: #1 total tags in treatment: 4380441 INFO @ Wed, 22 Jul 2020 14:25:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:25:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:25:24: #1 tags after filtering in treatment: 2819725 INFO @ Wed, 22 Jul 2020 14:25:24: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:25:24: #1 finished! INFO @ Wed, 22 Jul 2020 14:25:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:25:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:25:24: #2 number of paired peaks: 26 WARNING @ Wed, 22 Jul 2020 14:25:24: 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 Jul 2020 14:25:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.10_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/SRX8357673/SRX8357673.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:25:26: 3000000 INFO @ Wed, 22 Jul 2020 14:25:30: 4000000 INFO @ Wed, 22 Jul 2020 14:25:35: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:25:40: 6000000 INFO @ Wed, 22 Jul 2020 14:25:44: 7000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:25:49: 8000000 INFO @ Wed, 22 Jul 2020 14:25:53: #1 tag size is determined as 38 bps INFO @ Wed, 22 Jul 2020 14:25:53: #1 tag size = 38 INFO @ Wed, 22 Jul 2020 14:25:53: #1 total tags in treatment: 4380441 INFO @ Wed, 22 Jul 2020 14:25:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:25:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:25:53: #1 tags after filtering in treatment: 2819725 INFO @ Wed, 22 Jul 2020 14:25:53: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:25:53: #1 finished! INFO @ Wed, 22 Jul 2020 14:25:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:25:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:25:54: #2 number of paired peaks: 26 WARNING @ Wed, 22 Jul 2020 14:25:54: 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 Jul 2020 14:25:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.20_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/SRX8357673/SRX8357673.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357673/SRX8357673.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling