Job ID = 14521866 SRX = SRX4623307 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8884937 spots for SRR7767712/SRR7767712.sra Written 8884937 spots for SRR7767712/SRR7767712.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: 00:04:29 8884937 reads; of these: 8884937 (100.00%) were paired; of these: 2074663 (23.35%) aligned concordantly 0 times 3826794 (43.07%) aligned concordantly exactly 1 time 2983480 (33.58%) aligned concordantly >1 times ---- 2074663 pairs aligned concordantly 0 times; of these: 554266 (26.72%) aligned discordantly 1 time ---- 1520397 pairs aligned 0 times concordantly or discordantly; of these: 3040794 mates make up the pairs; of these: 2166955 (71.26%) aligned 0 times 179200 (5.89%) aligned exactly 1 time 694639 (22.84%) aligned >1 times 87.81% overall alignment rate Time searching: 00:04:29 Overall time: 00:04:29 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] 743784 / 7360377 = 0.1011 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 21:53:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.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 21:53:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:53:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:53:14: 1000000 INFO @ Sat, 15 Jan 2022 21:53:18: 2000000 INFO @ Sat, 15 Jan 2022 21:53:22: 3000000 INFO @ Sat, 15 Jan 2022 21:53:26: 4000000 INFO @ Sat, 15 Jan 2022 21:53:30: 5000000 INFO @ Sat, 15 Jan 2022 21:53:34: 6000000 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 21:53:38: 7000000 INFO @ Sat, 15 Jan 2022 21:53:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.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 21:53:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:53:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:53:43: 8000000 INFO @ Sat, 15 Jan 2022 21:53:44: 1000000 INFO @ Sat, 15 Jan 2022 21:53:48: 9000000 INFO @ Sat, 15 Jan 2022 21:53:48: 2000000 INFO @ Sat, 15 Jan 2022 21:53:52: 3000000 INFO @ Sat, 15 Jan 2022 21:53:52: 10000000 INFO @ Sat, 15 Jan 2022 21:53:57: 4000000 INFO @ Sat, 15 Jan 2022 21:53:57: 11000000 INFO @ Sat, 15 Jan 2022 21:54:01: 5000000 INFO @ Sat, 15 Jan 2022 21:54:02: 12000000 INFO @ Sat, 15 Jan 2022 21:54:06: 6000000 INFO @ Sat, 15 Jan 2022 21:54:06: 13000000 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 21:54:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.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 21:54:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:54:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:10: 14000000 INFO @ Sat, 15 Jan 2022 21:54:10: 7000000 INFO @ Sat, 15 Jan 2022 21:54:11: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:54:11: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:54:11: #1 total tags in treatment: 6071610 INFO @ Sat, 15 Jan 2022 21:54:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:54:11: #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 21:54:11: #1 tags after filtering in treatment: 3664617 INFO @ Sat, 15 Jan 2022 21:54:11: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 21:54:11: #1 finished! INFO @ Sat, 15 Jan 2022 21:54:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:54:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:54:11: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 21:54:11: 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 @ Sat, 15 Jan 2022 21:54:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.05_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/SRX4623307/SRX4623307.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:54:14: 1000000 INFO @ Sat, 15 Jan 2022 21:54:15: 8000000 INFO @ Sat, 15 Jan 2022 21:54:19: 2000000 INFO @ Sat, 15 Jan 2022 21:54:19: 9000000 INFO @ Sat, 15 Jan 2022 21:54:24: 3000000 INFO @ Sat, 15 Jan 2022 21:54:24: 10000000 INFO @ Sat, 15 Jan 2022 21:54:28: 4000000 INFO @ Sat, 15 Jan 2022 21:54:29: 11000000 INFO @ Sat, 15 Jan 2022 21:54:33: 5000000 INFO @ Sat, 15 Jan 2022 21:54:33: 12000000 INFO @ Sat, 15 Jan 2022 21:54:38: 13000000 INFO @ Sat, 15 Jan 2022 21:54:38: 6000000 INFO @ Sat, 15 Jan 2022 21:54:43: 14000000 INFO @ Sat, 15 Jan 2022 21:54:43: 7000000 INFO @ Sat, 15 Jan 2022 21:54:44: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:54:44: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:54:44: #1 total tags in treatment: 6071610 INFO @ Sat, 15 Jan 2022 21:54:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:54:44: #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 21:54:44: #1 tags after filtering in treatment: 3664617 INFO @ Sat, 15 Jan 2022 21:54:44: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 21:54:44: #1 finished! INFO @ Sat, 15 Jan 2022 21:54:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:54:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:54:44: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 21:54:44: 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 @ Sat, 15 Jan 2022 21:54:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.10_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/SRX4623307/SRX4623307.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:54:48: 8000000 INFO @ Sat, 15 Jan 2022 21:54:52: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:54:56: 10000000 INFO @ Sat, 15 Jan 2022 21:55:00: 11000000 INFO @ Sat, 15 Jan 2022 21:55:05: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:55:09: 13000000 INFO @ Sat, 15 Jan 2022 21:55:14: 14000000 INFO @ Sat, 15 Jan 2022 21:55:14: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:55:14: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:55:14: #1 total tags in treatment: 6071610 INFO @ Sat, 15 Jan 2022 21:55:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:55:14: #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 21:55:14: #1 tags after filtering in treatment: 3664617 INFO @ Sat, 15 Jan 2022 21:55:14: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 21:55:14: #1 finished! INFO @ Sat, 15 Jan 2022 21:55:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:55:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:55:14: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 21:55:14: 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 @ Sat, 15 Jan 2022 21:55:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.20_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/SRX4623307/SRX4623307.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623307/SRX4623307.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling