Job ID = 7108878 SRX = SRX8036497 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12104601 spots for SRR11458944/SRR11458944.sra Written 12104601 spots for SRR11458944/SRR11458944.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: 00:06:01 12104601 reads; of these: 12104601 (100.00%) were paired; of these: 8218498 (67.90%) aligned concordantly 0 times 3289038 (27.17%) aligned concordantly exactly 1 time 597065 (4.93%) aligned concordantly >1 times ---- 8218498 pairs aligned concordantly 0 times; of these: 14073 (0.17%) aligned discordantly 1 time ---- 8204425 pairs aligned 0 times concordantly or discordantly; of these: 16408850 mates make up the pairs; of these: 16380648 (99.83%) aligned 0 times 17116 (0.10%) aligned exactly 1 time 11086 (0.07%) aligned >1 times 32.34% overall alignment rate Time searching: 00:06:01 Overall time: 00:06:01 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] 642437 / 3898713 = 0.1648 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 13:51:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.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 13:51:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:51:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:51:42: 1000000 INFO @ Wed, 22 Jul 2020 13:51:50: 2000000 INFO @ Wed, 22 Jul 2020 13:51:57: 3000000 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 13:52:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.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 13:52:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:52:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:52:04: 4000000 INFO @ Wed, 22 Jul 2020 13:52:12: 1000000 INFO @ Wed, 22 Jul 2020 13:52:12: 5000000 INFO @ Wed, 22 Jul 2020 13:52:19: 2000000 INFO @ Wed, 22 Jul 2020 13:52:19: 6000000 INFO @ Wed, 22 Jul 2020 13:52:24: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:52:24: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:52:24: #1 total tags in treatment: 3244920 INFO @ Wed, 22 Jul 2020 13:52:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:52:24: #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 13:52:24: #1 tags after filtering in treatment: 2710699 INFO @ Wed, 22 Jul 2020 13:52:24: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Jul 2020 13:52:24: #1 finished! INFO @ Wed, 22 Jul 2020 13:52:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:52:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:52:24: #2 number of paired peaks: 50 WARNING @ Wed, 22 Jul 2020 13:52:24: Too few paired peaks (50) 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 13:52:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.05_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/SRX8036497/SRX8036497.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:52:27: 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 13:52:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.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 13:52:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:52:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:52:34: 4000000 INFO @ Wed, 22 Jul 2020 13:52:42: 5000000 INFO @ Wed, 22 Jul 2020 13:52:43: 1000000 INFO @ Wed, 22 Jul 2020 13:52:50: 6000000 INFO @ Wed, 22 Jul 2020 13:52:53: 2000000 INFO @ Wed, 22 Jul 2020 13:52:55: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:52:55: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:52:55: #1 total tags in treatment: 3244920 INFO @ Wed, 22 Jul 2020 13:52:55: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:52:55: #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 13:52:55: #1 tags after filtering in treatment: 2710699 INFO @ Wed, 22 Jul 2020 13:52:55: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Jul 2020 13:52:55: #1 finished! INFO @ Wed, 22 Jul 2020 13:52:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:52:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:52:55: #2 number of paired peaks: 50 WARNING @ Wed, 22 Jul 2020 13:52:55: Too few paired peaks (50) 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 13:52:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.10_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/SRX8036497/SRX8036497.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:53:02: 3000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:53:11: 4000000 INFO @ Wed, 22 Jul 2020 13:53:19: 5000000 INFO @ Wed, 22 Jul 2020 13:53:28: 6000000 INFO @ Wed, 22 Jul 2020 13:53:32: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:53:32: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:53:32: #1 total tags in treatment: 3244920 INFO @ Wed, 22 Jul 2020 13:53:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:53:32: #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 13:53:33: #1 tags after filtering in treatment: 2710699 INFO @ Wed, 22 Jul 2020 13:53:33: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Jul 2020 13:53:33: #1 finished! INFO @ Wed, 22 Jul 2020 13:53:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:53:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:53:33: #2 number of paired peaks: 50 WARNING @ Wed, 22 Jul 2020 13:53:33: Too few paired peaks (50) 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 13:53:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.20_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/SRX8036497/SRX8036497.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036497/SRX8036497.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling