Job ID = 12531626 SRX = SRX4555009 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15132685 spots for SRR7696697/SRR7696697.sra Written 15132685 spots for SRR7696697/SRR7696697.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: 00:17:09 15132685 reads; of these: 15132685 (100.00%) were paired; of these: 867487 (5.73%) aligned concordantly 0 times 7058439 (46.64%) aligned concordantly exactly 1 time 7206759 (47.62%) aligned concordantly >1 times ---- 867487 pairs aligned concordantly 0 times; of these: 54242 (6.25%) aligned discordantly 1 time ---- 813245 pairs aligned 0 times concordantly or discordantly; of these: 1626490 mates make up the pairs; of these: 1236912 (76.05%) aligned 0 times 214703 (13.20%) aligned exactly 1 time 174875 (10.75%) aligned >1 times 95.91% overall alignment rate Time searching: 00:17:09 Overall time: 00:17:09 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 20 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] 2739656 / 6319568 = 0.4335 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:10:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.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, 17 Apr 2021 09:10:49: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:10:49: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:10:56: 1000000 INFO @ Sat, 17 Apr 2021 09:11:04: 2000000 INFO @ Sat, 17 Apr 2021 09:11:11: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:11:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.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, 17 Apr 2021 09:11:19: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:11:19: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:11:19: 4000000 INFO @ Sat, 17 Apr 2021 09:11:28: 1000000 INFO @ Sat, 17 Apr 2021 09:11:28: 5000000 INFO @ Sat, 17 Apr 2021 09:11:37: 2000000 INFO @ Sat, 17 Apr 2021 09:11:37: 6000000 INFO @ Sat, 17 Apr 2021 09:11:46: 3000000 INFO @ Sat, 17 Apr 2021 09:11:46: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:11:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.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, 17 Apr 2021 09:11:49: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:11:49: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:11:56: 4000000 INFO @ Sat, 17 Apr 2021 09:11:56: 8000000 INFO @ Sat, 17 Apr 2021 09:12:00: 1000000 INFO @ Sat, 17 Apr 2021 09:12:06: 5000000 INFO @ Sat, 17 Apr 2021 09:12:07: 9000000 INFO @ Sat, 17 Apr 2021 09:12:11: 2000000 INFO @ Sat, 17 Apr 2021 09:12:16: 6000000 INFO @ Sat, 17 Apr 2021 09:12:16: 10000000 INFO @ Sat, 17 Apr 2021 09:12:21: 3000000 INFO @ Sat, 17 Apr 2021 09:12:26: 11000000 INFO @ Sat, 17 Apr 2021 09:12:26: 7000000 INFO @ Sat, 17 Apr 2021 09:12:31: 4000000 INFO @ Sat, 17 Apr 2021 09:12:35: 12000000 INFO @ Sat, 17 Apr 2021 09:12:36: 8000000 INFO @ Sat, 17 Apr 2021 09:12:41: 5000000 INFO @ Sat, 17 Apr 2021 09:12:44: 13000000 INFO @ Sat, 17 Apr 2021 09:12:46: 9000000 INFO @ Sat, 17 Apr 2021 09:12:50: 6000000 INFO @ Sat, 17 Apr 2021 09:12:53: 14000000 INFO @ Sat, 17 Apr 2021 09:12:55: 10000000 INFO @ Sat, 17 Apr 2021 09:13:00: 7000000 INFO @ Sat, 17 Apr 2021 09:13:03: 15000000 INFO @ Sat, 17 Apr 2021 09:13:04: 11000000 INFO @ Sat, 17 Apr 2021 09:13:10: 8000000 INFO @ Sat, 17 Apr 2021 09:13:12: 16000000 INFO @ Sat, 17 Apr 2021 09:13:13: 12000000 INFO @ Sat, 17 Apr 2021 09:13:20: 9000000 INFO @ Sat, 17 Apr 2021 09:13:21: 17000000 INFO @ Sat, 17 Apr 2021 09:13:22: 13000000 INFO @ Sat, 17 Apr 2021 09:13:30: 10000000 INFO @ Sat, 17 Apr 2021 09:13:31: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:13:32: 14000000 INFO @ Sat, 17 Apr 2021 09:13:39: 11000000 INFO @ Sat, 17 Apr 2021 09:13:41: 19000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:13:41: 15000000 INFO @ Sat, 17 Apr 2021 09:13:49: 12000000 INFO @ Sat, 17 Apr 2021 09:13:51: 16000000 INFO @ Sat, 17 Apr 2021 09:13:51: 20000000 INFO @ Sat, 17 Apr 2021 09:13:58: 13000000 INFO @ Sat, 17 Apr 2021 09:14:00: 17000000 INFO @ Sat, 17 Apr 2021 09:14:01: 21000000 INFO @ Sat, 17 Apr 2021 09:14:07: 14000000 INFO @ Sat, 17 Apr 2021 09:14:09: 18000000 INFO @ Sat, 17 Apr 2021 09:14:10: 22000000 INFO @ Sat, 17 Apr 2021 09:14:16: 15000000 INFO @ Sat, 17 Apr 2021 09:14:19: 19000000 INFO @ Sat, 17 Apr 2021 09:14:20: 23000000 INFO @ Sat, 17 Apr 2021 09:14:25: 16000000 INFO @ Sat, 17 Apr 2021 09:14:25: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:14:25: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:14:25: #1 total tags in treatment: 11529534 INFO @ Sat, 17 Apr 2021 09:14:25: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:14:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:14:25: #1 tags after filtering in treatment: 2852466 INFO @ Sat, 17 Apr 2021 09:14:25: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:14:25: #1 finished! INFO @ Sat, 17 Apr 2021 09:14:25: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:14:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:14:26: #2 number of paired peaks: 48 WARNING @ Sat, 17 Apr 2021 09:14:26: Too few paired peaks (48) 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, 17 Apr 2021 09:14:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.05_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/SRX4555009/SRX4555009.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:14:28: 20000000 INFO @ Sat, 17 Apr 2021 09:14:34: 17000000 INFO @ Sat, 17 Apr 2021 09:14:38: 21000000 INFO @ Sat, 17 Apr 2021 09:14:43: 18000000 INFO @ Sat, 17 Apr 2021 09:14:47: 22000000 INFO @ Sat, 17 Apr 2021 09:14:52: 19000000 INFO @ Sat, 17 Apr 2021 09:14:56: 23000000 INFO @ Sat, 17 Apr 2021 09:15:01: 20000000 INFO @ Sat, 17 Apr 2021 09:15:01: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:15:01: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:15:01: #1 total tags in treatment: 11529534 INFO @ Sat, 17 Apr 2021 09:15:01: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:15:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:15:01: #1 tags after filtering in treatment: 2852466 INFO @ Sat, 17 Apr 2021 09:15:01: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:15:01: #1 finished! INFO @ Sat, 17 Apr 2021 09:15:01: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:15:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:15:02: #2 number of paired peaks: 48 WARNING @ Sat, 17 Apr 2021 09:15:02: Too few paired peaks (48) 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, 17 Apr 2021 09:15:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.10_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/SRX4555009/SRX4555009.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:15:09: 21000000 INFO @ Sat, 17 Apr 2021 09:15:17: 22000000 INFO @ Sat, 17 Apr 2021 09:15:25: 23000000 INFO @ Sat, 17 Apr 2021 09:15:29: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:15:29: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:15:29: #1 total tags in treatment: 11529534 INFO @ Sat, 17 Apr 2021 09:15:29: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:15:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:15:29: #1 tags after filtering in treatment: 2852466 INFO @ Sat, 17 Apr 2021 09:15:29: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:15:29: #1 finished! INFO @ Sat, 17 Apr 2021 09:15:29: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:15:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:15:30: #2 number of paired peaks: 48 WARNING @ Sat, 17 Apr 2021 09:15:30: Too few paired peaks (48) 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, 17 Apr 2021 09:15:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555009/SRX4555009.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling