Job ID = 7112641 SRX = SRX8357686 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:22:18 prefetch.2.10.7: 1) Downloading 'SRR11806274'... 2020-07-22T05:22:18 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:23:23 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:23:24 prefetch.2.10.7: 'SRR11806274' is valid 2020-07-22T05:23:24 prefetch.2.10.7: 1) 'SRR11806274' was downloaded successfully 2020-07-22T05:23:24 prefetch.2.10.7: 'SRR11806274' has 0 unresolved dependencies Read 10099105 spots for SRR11806274/SRR11806274.sra Written 10099105 spots for SRR11806274/SRR11806274.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: 00:05:14 10099105 reads; of these: 10099105 (100.00%) were paired; of these: 534323 (5.29%) aligned concordantly 0 times 7922172 (78.44%) aligned concordantly exactly 1 time 1642610 (16.26%) aligned concordantly >1 times ---- 534323 pairs aligned concordantly 0 times; of these: 60645 (11.35%) aligned discordantly 1 time ---- 473678 pairs aligned 0 times concordantly or discordantly; of these: 947356 mates make up the pairs; of these: 759432 (80.16%) aligned 0 times 123589 (13.05%) aligned exactly 1 time 64335 (6.79%) aligned >1 times 96.24% overall alignment rate Time searching: 00:05:14 Overall time: 00:05:14 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] 1761663 / 9600168 = 0.1835 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 14:34:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.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 14:34:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:34:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:34:23: 1000000 INFO @ Wed, 22 Jul 2020 14:34:28: 2000000 INFO @ Wed, 22 Jul 2020 14:34:33: 3000000 INFO @ Wed, 22 Jul 2020 14:34:38: 4000000 INFO @ Wed, 22 Jul 2020 14:34:43: 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 14:34:48: 6000000 INFO @ Wed, 22 Jul 2020 14:34:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.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 14:34:48: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:34:48: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:34:54: 7000000 INFO @ Wed, 22 Jul 2020 14:34:54: 1000000 INFO @ Wed, 22 Jul 2020 14:34:59: 8000000 INFO @ Wed, 22 Jul 2020 14:34:59: 2000000 INFO @ Wed, 22 Jul 2020 14:35:04: 9000000 INFO @ Wed, 22 Jul 2020 14:35:04: 3000000 INFO @ Wed, 22 Jul 2020 14:35:09: 10000000 INFO @ Wed, 22 Jul 2020 14:35:10: 4000000 INFO @ Wed, 22 Jul 2020 14:35:15: 11000000 INFO @ Wed, 22 Jul 2020 14:35:15: 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 14:35:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.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 14:35:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:35:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:35:20: 12000000 INFO @ Wed, 22 Jul 2020 14:35:21: 6000000 INFO @ Wed, 22 Jul 2020 14:35:25: 1000000 INFO @ Wed, 22 Jul 2020 14:35:26: 13000000 INFO @ Wed, 22 Jul 2020 14:35:27: 7000000 INFO @ Wed, 22 Jul 2020 14:35:32: 2000000 INFO @ Wed, 22 Jul 2020 14:35:32: 14000000 INFO @ Wed, 22 Jul 2020 14:35:33: 8000000 INFO @ Wed, 22 Jul 2020 14:35:38: 3000000 INFO @ Wed, 22 Jul 2020 14:35:38: 15000000 INFO @ Wed, 22 Jul 2020 14:35:39: 9000000 INFO @ Wed, 22 Jul 2020 14:35:44: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:35:44: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:35:44: #1 total tags in treatment: 7806996 INFO @ Wed, 22 Jul 2020 14:35:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:35:44: #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 14:35:44: #1 tags after filtering in treatment: 4422705 INFO @ Wed, 22 Jul 2020 14:35:44: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 14:35:44: #1 finished! INFO @ Wed, 22 Jul 2020 14:35:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:35:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:35:44: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:35:44: 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 Jul 2020 14:35:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.05_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/SRX8357686/SRX8357686.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:35:45: 10000000 INFO @ Wed, 22 Jul 2020 14:35:45: 4000000 INFO @ Wed, 22 Jul 2020 14:35:50: 11000000 INFO @ Wed, 22 Jul 2020 14:35:51: 5000000 INFO @ Wed, 22 Jul 2020 14:35:56: 12000000 INFO @ Wed, 22 Jul 2020 14:35:58: 6000000 INFO @ Wed, 22 Jul 2020 14:36:02: 13000000 INFO @ Wed, 22 Jul 2020 14:36:04: 7000000 INFO @ Wed, 22 Jul 2020 14:36:08: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:36:11: 8000000 INFO @ Wed, 22 Jul 2020 14:36:13: 15000000 INFO @ Wed, 22 Jul 2020 14:36:17: 9000000 INFO @ Wed, 22 Jul 2020 14:36:19: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:36:19: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:36:19: #1 total tags in treatment: 7806996 INFO @ Wed, 22 Jul 2020 14:36:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:36:19: #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 14:36:19: #1 tags after filtering in treatment: 4422705 INFO @ Wed, 22 Jul 2020 14:36:19: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 14:36:19: #1 finished! INFO @ Wed, 22 Jul 2020 14:36:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:36:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:36:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:36:19: 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 Jul 2020 14:36:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.10_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/SRX8357686/SRX8357686.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:36:24: 10000000 INFO @ Wed, 22 Jul 2020 14:36:30: 11000000 INFO @ Wed, 22 Jul 2020 14:36:36: 12000000 INFO @ Wed, 22 Jul 2020 14:36:42: 13000000 INFO @ Wed, 22 Jul 2020 14:36:48: 14000000 INFO @ Wed, 22 Jul 2020 14:36:54: 15000000 INFO @ Wed, 22 Jul 2020 14:36:59: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:36:59: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:36:59: #1 total tags in treatment: 7806996 INFO @ Wed, 22 Jul 2020 14:36:59: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:36:59: #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 14:37:00: #1 tags after filtering in treatment: 4422705 INFO @ Wed, 22 Jul 2020 14:37:00: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 14:37:00: #1 finished! INFO @ Wed, 22 Jul 2020 14:37:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:37:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:37:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:37:00: 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 Jul 2020 14:37:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.20_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/SRX8357686/SRX8357686.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357686/SRX8357686.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling