Job ID = 14521867 SRX = SRX4623308 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9879802 spots for SRR7767713/SRR7767713.sra Written 9879802 spots for SRR7767713/SRR7767713.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: 00:04:51 9879802 reads; of these: 9879802 (100.00%) were paired; of these: 2743943 (27.77%) aligned concordantly 0 times 4904039 (49.64%) aligned concordantly exactly 1 time 2231820 (22.59%) aligned concordantly >1 times ---- 2743943 pairs aligned concordantly 0 times; of these: 612179 (22.31%) aligned discordantly 1 time ---- 2131764 pairs aligned 0 times concordantly or discordantly; of these: 4263528 mates make up the pairs; of these: 3629491 (85.13%) aligned 0 times 187914 (4.41%) aligned exactly 1 time 446123 (10.46%) aligned >1 times 81.63% overall alignment rate Time searching: 00:04:51 Overall time: 00:04:51 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] 407866 / 7744397 = 0.0527 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 21:53:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.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 21:53:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:53:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:01: 1000000 INFO @ Sat, 15 Jan 2022 21:54:08: 2000000 INFO @ Sat, 15 Jan 2022 21:54:14: 3000000 INFO @ Sat, 15 Jan 2022 21:54:19: 4000000 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 21:54:25: 5000000 INFO @ Sat, 15 Jan 2022 21:54:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.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 21:54:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:54:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:30: 6000000 INFO @ Sat, 15 Jan 2022 21:54:31: 1000000 INFO @ Sat, 15 Jan 2022 21:54:36: 7000000 INFO @ Sat, 15 Jan 2022 21:54:37: 2000000 INFO @ Sat, 15 Jan 2022 21:54:42: 8000000 INFO @ Sat, 15 Jan 2022 21:54:43: 3000000 INFO @ Sat, 15 Jan 2022 21:54:47: 9000000 INFO @ Sat, 15 Jan 2022 21:54:50: 4000000 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 21:54:53: 10000000 INFO @ Sat, 15 Jan 2022 21:54:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.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 21:54:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:54:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:56: 5000000 INFO @ Sat, 15 Jan 2022 21:54:59: 11000000 INFO @ Sat, 15 Jan 2022 21:55:02: 1000000 INFO @ Sat, 15 Jan 2022 21:55:02: 6000000 INFO @ Sat, 15 Jan 2022 21:55:05: 12000000 INFO @ Sat, 15 Jan 2022 21:55:08: 7000000 INFO @ Sat, 15 Jan 2022 21:55:08: 2000000 INFO @ Sat, 15 Jan 2022 21:55:10: 13000000 INFO @ Sat, 15 Jan 2022 21:55:14: 8000000 INFO @ Sat, 15 Jan 2022 21:55:15: 3000000 INFO @ Sat, 15 Jan 2022 21:55:16: 14000000 INFO @ Sat, 15 Jan 2022 21:55:20: 9000000 INFO @ Sat, 15 Jan 2022 21:55:21: 4000000 INFO @ Sat, 15 Jan 2022 21:55:22: 15000000 INFO @ Sat, 15 Jan 2022 21:55:24: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:55:24: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:55:24: #1 total tags in treatment: 6731383 INFO @ Sat, 15 Jan 2022 21:55:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:55:24: #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 21:55:24: #1 tags after filtering in treatment: 4622453 INFO @ Sat, 15 Jan 2022 21:55:24: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:55:24: #1 finished! INFO @ Sat, 15 Jan 2022 21:55:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:55:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:55:24: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:55:24: 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 21:55:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.05_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/SRX4623308/SRX4623308.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:55:26: 10000000 INFO @ Sat, 15 Jan 2022 21:55:27: 5000000 INFO @ Sat, 15 Jan 2022 21:55:31: 11000000 INFO @ Sat, 15 Jan 2022 21:55:34: 6000000 INFO @ Sat, 15 Jan 2022 21:55:37: 12000000 INFO @ Sat, 15 Jan 2022 21:55:40: 7000000 INFO @ Sat, 15 Jan 2022 21:55:43: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:55:46: 8000000 INFO @ Sat, 15 Jan 2022 21:55:49: 14000000 INFO @ Sat, 15 Jan 2022 21:55:52: 9000000 INFO @ Sat, 15 Jan 2022 21:55:55: 15000000 INFO @ Sat, 15 Jan 2022 21:55:57: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:55:57: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:55:57: #1 total tags in treatment: 6731383 INFO @ Sat, 15 Jan 2022 21:55:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:55:57: #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 21:55:57: #1 tags after filtering in treatment: 4622453 INFO @ Sat, 15 Jan 2022 21:55:57: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:55:57: #1 finished! INFO @ Sat, 15 Jan 2022 21:55:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:55:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:55:57: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:55:57: 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 21:55:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.10_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/SRX4623308/SRX4623308.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:55:58: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:56:04: 11000000 INFO @ Sat, 15 Jan 2022 21:56:10: 12000000 INFO @ Sat, 15 Jan 2022 21:56:16: 13000000 INFO @ Sat, 15 Jan 2022 21:56:22: 14000000 INFO @ Sat, 15 Jan 2022 21:56:28: 15000000 INFO @ Sat, 15 Jan 2022 21:56:30: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:56:30: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:56:30: #1 total tags in treatment: 6731383 INFO @ Sat, 15 Jan 2022 21:56:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:56:30: #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 21:56:30: #1 tags after filtering in treatment: 4622453 INFO @ Sat, 15 Jan 2022 21:56:30: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:56:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:56:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:56:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:56:30: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:56:30: 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 21:56:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.20_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/SRX4623308/SRX4623308.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623308/SRX4623308.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling