Job ID = 7111801 SRX = SRX8357668 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:11:43 prefetch.2.10.7: 1) Downloading 'SRR11806256'... 2020-07-22T05:11:43 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:12:44 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:12:45 prefetch.2.10.7: 'SRR11806256' is valid 2020-07-22T05:12:45 prefetch.2.10.7: 1) 'SRR11806256' was downloaded successfully 2020-07-22T05:12:45 prefetch.2.10.7: 'SRR11806256' has 0 unresolved dependencies Read 12326473 spots for SRR11806256/SRR11806256.sra Written 12326473 spots for SRR11806256/SRR11806256.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: 00:07:44 12326473 reads; of these: 12326473 (100.00%) were paired; of these: 3807019 (30.88%) aligned concordantly 0 times 6181130 (50.15%) aligned concordantly exactly 1 time 2338324 (18.97%) aligned concordantly >1 times ---- 3807019 pairs aligned concordantly 0 times; of these: 71889 (1.89%) aligned discordantly 1 time ---- 3735130 pairs aligned 0 times concordantly or discordantly; of these: 7470260 mates make up the pairs; of these: 6954792 (93.10%) aligned 0 times 152692 (2.04%) aligned exactly 1 time 362776 (4.86%) aligned >1 times 71.79% overall alignment rate Time searching: 00:07:44 Overall time: 00:07:44 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 8 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] 3440624 / 8566523 = 0.4016 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 14:25:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.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 14:25:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:25:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:25:10: 1000000 INFO @ Wed, 22 Jul 2020 14:25:15: 2000000 INFO @ Wed, 22 Jul 2020 14:25:20: 3000000 INFO @ Wed, 22 Jul 2020 14:25:26: 4000000 INFO @ Wed, 22 Jul 2020 14:25:31: 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 14:25:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.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 14:25:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:25:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:25:36: 6000000 INFO @ Wed, 22 Jul 2020 14:25:40: 1000000 INFO @ Wed, 22 Jul 2020 14:25:42: 7000000 INFO @ Wed, 22 Jul 2020 14:25:46: 2000000 INFO @ Wed, 22 Jul 2020 14:25:48: 8000000 INFO @ Wed, 22 Jul 2020 14:25:51: 3000000 INFO @ Wed, 22 Jul 2020 14:25:53: 9000000 INFO @ Wed, 22 Jul 2020 14:25:57: 4000000 INFO @ Wed, 22 Jul 2020 14:25:59: 10000000 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 14:26:03: 5000000 INFO @ Wed, 22 Jul 2020 14:26:04: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:26:04: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:26:04: #1 total tags in treatment: 5105071 INFO @ Wed, 22 Jul 2020 14:26:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:26:04: #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 14:26:04: #1 tags after filtering in treatment: 3108421 INFO @ Wed, 22 Jul 2020 14:26:04: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 14:26:04: #1 finished! INFO @ Wed, 22 Jul 2020 14:26:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:26:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:26:04: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 14:26:04: Too few paired peaks (28) 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 14:26:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.05_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/SRX8357668/SRX8357668.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:26:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.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 14:26:05: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:26:05: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:26:08: 6000000 INFO @ Wed, 22 Jul 2020 14:26:10: 1000000 INFO @ Wed, 22 Jul 2020 14:26:14: 7000000 INFO @ Wed, 22 Jul 2020 14:26:16: 2000000 INFO @ Wed, 22 Jul 2020 14:26:19: 8000000 INFO @ Wed, 22 Jul 2020 14:26:21: 3000000 INFO @ Wed, 22 Jul 2020 14:26:25: 9000000 INFO @ Wed, 22 Jul 2020 14:26:27: 4000000 INFO @ Wed, 22 Jul 2020 14:26:30: 10000000 INFO @ Wed, 22 Jul 2020 14:26:33: 5000000 INFO @ Wed, 22 Jul 2020 14:26:35: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:26:35: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:26:35: #1 total tags in treatment: 5105071 INFO @ Wed, 22 Jul 2020 14:26:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:26:35: #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 14:26:35: #1 tags after filtering in treatment: 3108421 INFO @ Wed, 22 Jul 2020 14:26:35: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 14:26:35: #1 finished! INFO @ Wed, 22 Jul 2020 14:26:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:26:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:26:35: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 14:26:35: Too few paired peaks (28) 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 14:26:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.10_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/SRX8357668/SRX8357668.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:26:38: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:26:43: 7000000 INFO @ Wed, 22 Jul 2020 14:26:49: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:26:54: 9000000 INFO @ Wed, 22 Jul 2020 14:26:59: 10000000 INFO @ Wed, 22 Jul 2020 14:27:03: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:27:03: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:27:03: #1 total tags in treatment: 5105071 INFO @ Wed, 22 Jul 2020 14:27:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:27:03: #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 14:27:04: #1 tags after filtering in treatment: 3108421 INFO @ Wed, 22 Jul 2020 14:27:04: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 14:27:04: #1 finished! INFO @ Wed, 22 Jul 2020 14:27:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:27:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:27:04: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 14:27:04: Too few paired peaks (28) 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 14:27:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.20_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/SRX8357668/SRX8357668.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357668/SRX8357668.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling