Job ID = 7113668 SRX = SRX8462180 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:44:55 prefetch.2.10.7: 1) Downloading 'SRR11915639'... 2020-07-22T05:44:55 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:46:04 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:46:04 prefetch.2.10.7: 'SRR11915639' is valid 2020-07-22T05:46:04 prefetch.2.10.7: 1) 'SRR11915639' was downloaded successfully 2020-07-22T05:46:04 prefetch.2.10.7: 'SRR11915639' has 0 unresolved dependencies Read 6193362 spots for SRR11915639/SRR11915639.sra Written 6193362 spots for SRR11915639/SRR11915639.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: 00:04:15 6193362 reads; of these: 6193362 (100.00%) were paired; of these: 1867646 (30.16%) aligned concordantly 0 times 3530962 (57.01%) aligned concordantly exactly 1 time 794754 (12.83%) aligned concordantly >1 times ---- 1867646 pairs aligned concordantly 0 times; of these: 17837 (0.96%) aligned discordantly 1 time ---- 1849809 pairs aligned 0 times concordantly or discordantly; of these: 3699618 mates make up the pairs; of these: 3603244 (97.40%) aligned 0 times 69442 (1.88%) aligned exactly 1 time 26932 (0.73%) aligned >1 times 70.91% overall alignment rate Time searching: 00:04:15 Overall time: 00:04:15 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] 1574519 / 4341717 = 0.3626 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 14:53:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.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 14:53:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:53:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:53:55: 1000000 INFO @ Wed, 22 Jul 2020 14:54:00: 2000000 INFO @ Wed, 22 Jul 2020 14:54:06: 3000000 INFO @ Wed, 22 Jul 2020 14:54:11: 4000000 INFO @ Wed, 22 Jul 2020 14:54:16: 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 Jul 2020 14:54:19: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:54:19: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:54:19: #1 total tags in treatment: 2753105 INFO @ Wed, 22 Jul 2020 14:54:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:54:19: #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 14:54:19: #1 tags after filtering in treatment: 2158118 INFO @ Wed, 22 Jul 2020 14:54:19: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 14:54:19: #1 finished! INFO @ Wed, 22 Jul 2020 14:54:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:54:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:54:19: #2 number of paired peaks: 45 WARNING @ Wed, 22 Jul 2020 14:54:19: Too few paired peaks (45) 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 14:54:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.05_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/SRX8462180/SRX8462180.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:54:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.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 14:54:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:54:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:54:25: 1000000 INFO @ Wed, 22 Jul 2020 14:54:30: 2000000 INFO @ Wed, 22 Jul 2020 14:54:35: 3000000 INFO @ Wed, 22 Jul 2020 14:54:40: 4000000 INFO @ Wed, 22 Jul 2020 14:54:45: 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 14:54:48: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:54:48: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:54:48: #1 total tags in treatment: 2753105 INFO @ Wed, 22 Jul 2020 14:54:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:54:48: #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 14:54:48: #1 tags after filtering in treatment: 2158118 INFO @ Wed, 22 Jul 2020 14:54:48: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 14:54:48: #1 finished! INFO @ Wed, 22 Jul 2020 14:54:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:54:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:54:48: #2 number of paired peaks: 45 WARNING @ Wed, 22 Jul 2020 14:54:48: Too few paired peaks (45) 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 14:54:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.10_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/SRX8462180/SRX8462180.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:54:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.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 14:54:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:54:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:54:55: 1000000 INFO @ Wed, 22 Jul 2020 14:55:00: 2000000 INFO @ Wed, 22 Jul 2020 14:55:05: 3000000 INFO @ Wed, 22 Jul 2020 14:55:10: 4000000 INFO @ Wed, 22 Jul 2020 14:55:15: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:55:18: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:55:18: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:55:18: #1 total tags in treatment: 2753105 INFO @ Wed, 22 Jul 2020 14:55:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:55:18: #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 14:55:18: #1 tags after filtering in treatment: 2158118 INFO @ Wed, 22 Jul 2020 14:55:18: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 14:55:18: #1 finished! INFO @ Wed, 22 Jul 2020 14:55:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:55:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:55:19: #2 number of paired peaks: 45 WARNING @ Wed, 22 Jul 2020 14:55:19: Too few paired peaks (45) 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 14:55:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.20_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/SRX8462180/SRX8462180.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462180/SRX8462180.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。