Job ID = 14520153 SRX = SRX10701693 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9626378 spots for SRR14347843/SRR14347843.sra Written 9626378 spots for SRR14347843/SRR14347843.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: 00:04:53 9626378 reads; of these: 9626378 (100.00%) were paired; of these: 1167035 (12.12%) aligned concordantly 0 times 6889284 (71.57%) aligned concordantly exactly 1 time 1570059 (16.31%) aligned concordantly >1 times ---- 1167035 pairs aligned concordantly 0 times; of these: 66546 (5.70%) aligned discordantly 1 time ---- 1100489 pairs aligned 0 times concordantly or discordantly; of these: 2200978 mates make up the pairs; of these: 2111784 (95.95%) aligned 0 times 43407 (1.97%) aligned exactly 1 time 45787 (2.08%) aligned >1 times 89.03% overall alignment rate Time searching: 00:04:53 Overall time: 00:04:53 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] 2851663 / 8525134 = 0.3345 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:36:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.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 @ Sat, 15 Jan 2022 18:36:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:36:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:36:11: 1000000 INFO @ Sat, 15 Jan 2022 18:36:16: 2000000 INFO @ Sat, 15 Jan 2022 18:36:21: 3000000 INFO @ Sat, 15 Jan 2022 18:36:26: 4000000 INFO @ Sat, 15 Jan 2022 18:36:31: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:36:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.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 @ Sat, 15 Jan 2022 18:36:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:36:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:36:37: 6000000 INFO @ Sat, 15 Jan 2022 18:36:43: 1000000 INFO @ Sat, 15 Jan 2022 18:36:43: 7000000 INFO @ Sat, 15 Jan 2022 18:36:50: 8000000 INFO @ Sat, 15 Jan 2022 18:36:50: 2000000 INFO @ Sat, 15 Jan 2022 18:36:56: 9000000 INFO @ Sat, 15 Jan 2022 18:36:57: 3000000 INFO @ Sat, 15 Jan 2022 18:37:02: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:37:04: 4000000 INFO @ Sat, 15 Jan 2022 18:37:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.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 @ Sat, 15 Jan 2022 18:37:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:37:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:37:09: 11000000 INFO @ Sat, 15 Jan 2022 18:37:12: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:37:12: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:37:12: #1 total tags in treatment: 5617325 INFO @ Sat, 15 Jan 2022 18:37:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:37:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:37:12: 5000000 INFO @ Sat, 15 Jan 2022 18:37:12: #1 tags after filtering in treatment: 3640581 INFO @ Sat, 15 Jan 2022 18:37:12: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 18:37:12: #1 finished! INFO @ Sat, 15 Jan 2022 18:37:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:37:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:37:12: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 18:37:12: 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 @ Sat, 15 Jan 2022 18:37:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.05_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/SRX10701693/SRX10701693.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:37:12: 1000000 INFO @ Sat, 15 Jan 2022 18:37:18: 2000000 INFO @ Sat, 15 Jan 2022 18:37:19: 6000000 INFO @ Sat, 15 Jan 2022 18:37:25: 3000000 INFO @ Sat, 15 Jan 2022 18:37:26: 7000000 INFO @ Sat, 15 Jan 2022 18:37:31: 4000000 INFO @ Sat, 15 Jan 2022 18:37:33: 8000000 INFO @ Sat, 15 Jan 2022 18:37:37: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:37:40: 9000000 INFO @ Sat, 15 Jan 2022 18:37:44: 6000000 INFO @ Sat, 15 Jan 2022 18:37:48: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:37:50: 7000000 INFO @ Sat, 15 Jan 2022 18:37:55: 11000000 INFO @ Sat, 15 Jan 2022 18:37:56: 8000000 INFO @ Sat, 15 Jan 2022 18:37:57: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:37:57: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:37:57: #1 total tags in treatment: 5617325 INFO @ Sat, 15 Jan 2022 18:37:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:37:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:37:57: #1 tags after filtering in treatment: 3640581 INFO @ Sat, 15 Jan 2022 18:37:57: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 18:37:57: #1 finished! INFO @ Sat, 15 Jan 2022 18:37:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:37:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:37:58: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 18:37:58: 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 @ Sat, 15 Jan 2022 18:37:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.10_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/SRX10701693/SRX10701693.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:38:02: 9000000 INFO @ Sat, 15 Jan 2022 18:38:07: 10000000 INFO @ Sat, 15 Jan 2022 18:38:12: 11000000 INFO @ Sat, 15 Jan 2022 18:38:14: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:38:14: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:38:14: #1 total tags in treatment: 5617325 INFO @ Sat, 15 Jan 2022 18:38:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:38:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:38:15: #1 tags after filtering in treatment: 3640581 INFO @ Sat, 15 Jan 2022 18:38:15: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 18:38:15: #1 finished! INFO @ Sat, 15 Jan 2022 18:38:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:38:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:38:15: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 18:38:15: 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 @ Sat, 15 Jan 2022 18:38:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.20_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/SRX10701693/SRX10701693.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10701693/SRX10701693.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling