Job ID = 7113585 SRX = SRX8462175 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:42:56 prefetch.2.10.7: 1) Downloading 'SRR11915634'... 2020-07-22T05:42:56 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:44:09 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:44:10 prefetch.2.10.7: 'SRR11915634' is valid 2020-07-22T05:44:10 prefetch.2.10.7: 1) 'SRR11915634' was downloaded successfully 2020-07-22T05:44:10 prefetch.2.10.7: 'SRR11915634' has 0 unresolved dependencies Read 5800415 spots for SRR11915634/SRR11915634.sra Written 5800415 spots for SRR11915634/SRR11915634.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: 00:05:03 5800415 reads; of these: 5800415 (100.00%) were paired; of these: 1101722 (18.99%) aligned concordantly 0 times 3811109 (65.70%) aligned concordantly exactly 1 time 887584 (15.30%) aligned concordantly >1 times ---- 1101722 pairs aligned concordantly 0 times; of these: 21261 (1.93%) aligned discordantly 1 time ---- 1080461 pairs aligned 0 times concordantly or discordantly; of these: 2160922 mates make up the pairs; of these: 2046603 (94.71%) aligned 0 times 81614 (3.78%) aligned exactly 1 time 32705 (1.51%) aligned >1 times 82.36% overall alignment rate Time searching: 00:05:03 Overall time: 00:05:03 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] 1213091 / 4716493 = 0.2572 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 14:53:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.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 14:53:24: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:53:24: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:53:31: 1000000 INFO @ Wed, 22 Jul 2020 14:53:37: 2000000 INFO @ Wed, 22 Jul 2020 14:53:43: 3000000 INFO @ Wed, 22 Jul 2020 14:53:49: 4000000 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 14:53:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.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 14:53:54: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:53:54: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:53:56: 5000000 INFO @ Wed, 22 Jul 2020 14:54:02: 1000000 INFO @ Wed, 22 Jul 2020 14:54:03: 6000000 INFO @ Wed, 22 Jul 2020 14:54:10: 2000000 INFO @ Wed, 22 Jul 2020 14:54:10: 7000000 INFO @ Wed, 22 Jul 2020 14:54:11: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:54:11: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:54:11: #1 total tags in treatment: 3487060 INFO @ Wed, 22 Jul 2020 14:54:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:54:11: #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 14:54:11: #1 tags after filtering in treatment: 2651931 INFO @ Wed, 22 Jul 2020 14:54:11: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 14:54:11: #1 finished! INFO @ Wed, 22 Jul 2020 14:54:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:54:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:54:11: #2 number of paired peaks: 33 WARNING @ Wed, 22 Jul 2020 14:54:11: Too few paired peaks (33) 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 14:54:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.05_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/SRX8462175/SRX8462175.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:54:17: 3000000 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 14:54:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.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 14:54:24: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:54:24: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:54:25: 4000000 INFO @ Wed, 22 Jul 2020 14:54:31: 1000000 INFO @ Wed, 22 Jul 2020 14:54:32: 5000000 INFO @ Wed, 22 Jul 2020 14:54:39: 2000000 INFO @ Wed, 22 Jul 2020 14:54:40: 6000000 INFO @ Wed, 22 Jul 2020 14:54:46: 3000000 INFO @ Wed, 22 Jul 2020 14:54:48: 7000000 INFO @ Wed, 22 Jul 2020 14:54:49: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:54:49: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:54:49: #1 total tags in treatment: 3487060 INFO @ Wed, 22 Jul 2020 14:54:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:54:49: #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 14:54:49: #1 tags after filtering in treatment: 2651931 INFO @ Wed, 22 Jul 2020 14:54:49: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 14:54:49: #1 finished! INFO @ Wed, 22 Jul 2020 14:54:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:54:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:54:49: #2 number of paired peaks: 33 WARNING @ Wed, 22 Jul 2020 14:54:49: Too few paired peaks (33) 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 14:54:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.10_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/SRX8462175/SRX8462175.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:54:53: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:54:59: 5000000 INFO @ Wed, 22 Jul 2020 14:55:06: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:55:12: 7000000 INFO @ Wed, 22 Jul 2020 14:55:13: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:55:13: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:55:13: #1 total tags in treatment: 3487060 INFO @ Wed, 22 Jul 2020 14:55:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:55:13: #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 14:55:13: #1 tags after filtering in treatment: 2651931 INFO @ Wed, 22 Jul 2020 14:55:13: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 14:55:13: #1 finished! INFO @ Wed, 22 Jul 2020 14:55:13: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:55:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:55:13: #2 number of paired peaks: 33 WARNING @ Wed, 22 Jul 2020 14:55:13: Too few paired peaks (33) 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 14:55:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.20_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/SRX8462175/SRX8462175.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462175/SRX8462175.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling