Job ID = 7111675 SRX = SRX8357666 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:11:13 prefetch.2.10.7: 1) Downloading 'SRR11806254'... 2020-07-22T05:11:13 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:12:22 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:12:23 prefetch.2.10.7: 'SRR11806254' is valid 2020-07-22T05:12:23 prefetch.2.10.7: 1) 'SRR11806254' was downloaded successfully 2020-07-22T05:12:23 prefetch.2.10.7: 'SRR11806254' has 0 unresolved dependencies Read 12401919 spots for SRR11806254/SRR11806254.sra Written 12401919 spots for SRR11806254/SRR11806254.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: 00:05:49 12401919 reads; of these: 12401919 (100.00%) were paired; of these: 4367110 (35.21%) aligned concordantly 0 times 6525094 (52.61%) aligned concordantly exactly 1 time 1509715 (12.17%) aligned concordantly >1 times ---- 4367110 pairs aligned concordantly 0 times; of these: 76396 (1.75%) aligned discordantly 1 time ---- 4290714 pairs aligned 0 times concordantly or discordantly; of these: 8581428 mates make up the pairs; of these: 8311928 (96.86%) aligned 0 times 104184 (1.21%) aligned exactly 1 time 165316 (1.93%) aligned >1 times 66.49% overall alignment rate Time searching: 00:05:49 Overall time: 00:05:49 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] 3385114 / 8089898 = 0.4184 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 14:22:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.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 14:22:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:22:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:22:35: 1000000 INFO @ Wed, 22 Jul 2020 14:22:42: 2000000 INFO @ Wed, 22 Jul 2020 14:22:49: 3000000 INFO @ Wed, 22 Jul 2020 14:22:56: 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 14:22:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.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 14:22:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:22:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:23:03: 5000000 INFO @ Wed, 22 Jul 2020 14:23:05: 1000000 INFO @ Wed, 22 Jul 2020 14:23:11: 6000000 INFO @ Wed, 22 Jul 2020 14:23:11: 2000000 INFO @ Wed, 22 Jul 2020 14:23:18: 3000000 INFO @ Wed, 22 Jul 2020 14:23:18: 7000000 INFO @ Wed, 22 Jul 2020 14:23:25: 4000000 INFO @ Wed, 22 Jul 2020 14:23:26: 8000000 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 14:23:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.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 14:23:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:23:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:23:31: 5000000 INFO @ Wed, 22 Jul 2020 14:23:33: 9000000 INFO @ Wed, 22 Jul 2020 14:23:36: 1000000 INFO @ Wed, 22 Jul 2020 14:23:38: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:23:38: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:23:38: #1 total tags in treatment: 4679352 INFO @ Wed, 22 Jul 2020 14:23:38: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:23:38: #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 14:23:38: #1 tags after filtering in treatment: 3013915 INFO @ Wed, 22 Jul 2020 14:23:38: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:23:38: #1 finished! INFO @ Wed, 22 Jul 2020 14:23:38: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:23:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:23:39: #2 number of paired peaks: 26 WARNING @ Wed, 22 Jul 2020 14:23:39: 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 14:23:39: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 14:23:39: 6000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.05_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/SRX8357666/SRX8357666.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:23:42: 2000000 INFO @ Wed, 22 Jul 2020 14:23:45: 7000000 INFO @ Wed, 22 Jul 2020 14:23:49: 3000000 INFO @ Wed, 22 Jul 2020 14:23:51: 8000000 INFO @ Wed, 22 Jul 2020 14:23:55: 4000000 INFO @ Wed, 22 Jul 2020 14:23:58: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:24:02: 5000000 INFO @ Wed, 22 Jul 2020 14:24:02: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:24:02: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:24:02: #1 total tags in treatment: 4679352 INFO @ Wed, 22 Jul 2020 14:24:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:24:02: #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 14:24:02: #1 tags after filtering in treatment: 3013915 INFO @ Wed, 22 Jul 2020 14:24:02: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:24:02: #1 finished! INFO @ Wed, 22 Jul 2020 14:24:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:24:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:24:02: #2 number of paired peaks: 26 WARNING @ Wed, 22 Jul 2020 14:24:02: 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 14:24:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.10_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/SRX8357666/SRX8357666.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:24:08: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:24:13: 7000000 INFO @ Wed, 22 Jul 2020 14:24:19: 8000000 INFO @ Wed, 22 Jul 2020 14:24:25: 9000000 INFO @ Wed, 22 Jul 2020 14:24:28: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:24:28: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:24:28: #1 total tags in treatment: 4679352 INFO @ Wed, 22 Jul 2020 14:24:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:24:28: #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 14:24:28: #1 tags after filtering in treatment: 3013915 INFO @ Wed, 22 Jul 2020 14:24:28: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:24:28: #1 finished! INFO @ Wed, 22 Jul 2020 14:24:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:24:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:24:29: #2 number of paired peaks: 26 WARNING @ Wed, 22 Jul 2020 14:24:29: 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 14:24:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.20_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/SRX8357666/SRX8357666.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357666/SRX8357666.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling