Job ID = 14521881 SRX = SRX4623312 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13270802 spots for SRR7767717/SRR7767717.sra Written 13270802 spots for SRR7767717/SRR7767717.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: 00:07:34 13270802 reads; of these: 13270802 (100.00%) were paired; of these: 1474591 (11.11%) aligned concordantly 0 times 10287965 (77.52%) aligned concordantly exactly 1 time 1508246 (11.37%) aligned concordantly >1 times ---- 1474591 pairs aligned concordantly 0 times; of these: 751027 (50.93%) aligned discordantly 1 time ---- 723564 pairs aligned 0 times concordantly or discordantly; of these: 1447128 mates make up the pairs; of these: 919754 (63.56%) aligned 0 times 245519 (16.97%) aligned exactly 1 time 281855 (19.48%) aligned >1 times 96.53% overall alignment rate Time searching: 00:07:34 Overall time: 00:07:34 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] 137428 / 12502006 = 0.0110 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 22:01:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.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 22:01:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:01:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:01:40: 1000000 INFO @ Sat, 15 Jan 2022 22:01:49: 2000000 INFO @ Sat, 15 Jan 2022 22:01:58: 3000000 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 22:02:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.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 22:02:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:07: 4000000 INFO @ Sat, 15 Jan 2022 22:02:08: 1000000 INFO @ Sat, 15 Jan 2022 22:02:15: 2000000 INFO @ Sat, 15 Jan 2022 22:02:16: 5000000 INFO @ Sat, 15 Jan 2022 22:02:22: 3000000 INFO @ Sat, 15 Jan 2022 22:02:26: 6000000 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 22:02:28: 4000000 INFO @ Sat, 15 Jan 2022 22:02:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.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 22:02:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:35: 7000000 INFO @ Sat, 15 Jan 2022 22:02:35: 5000000 INFO @ Sat, 15 Jan 2022 22:02:40: 1000000 INFO @ Sat, 15 Jan 2022 22:02:42: 6000000 INFO @ Sat, 15 Jan 2022 22:02:45: 8000000 INFO @ Sat, 15 Jan 2022 22:02:49: 7000000 INFO @ Sat, 15 Jan 2022 22:02:50: 2000000 INFO @ Sat, 15 Jan 2022 22:02:54: 9000000 INFO @ Sat, 15 Jan 2022 22:02:56: 8000000 INFO @ Sat, 15 Jan 2022 22:02:59: 3000000 INFO @ Sat, 15 Jan 2022 22:03:03: 9000000 INFO @ Sat, 15 Jan 2022 22:03:04: 10000000 INFO @ Sat, 15 Jan 2022 22:03:09: 4000000 INFO @ Sat, 15 Jan 2022 22:03:11: 10000000 INFO @ Sat, 15 Jan 2022 22:03:13: 11000000 INFO @ Sat, 15 Jan 2022 22:03:18: 11000000 INFO @ Sat, 15 Jan 2022 22:03:18: 5000000 INFO @ Sat, 15 Jan 2022 22:03:22: 12000000 INFO @ Sat, 15 Jan 2022 22:03:25: 12000000 INFO @ Sat, 15 Jan 2022 22:03:28: 6000000 INFO @ Sat, 15 Jan 2022 22:03:31: 13000000 INFO @ Sat, 15 Jan 2022 22:03:32: 13000000 INFO @ Sat, 15 Jan 2022 22:03:37: 7000000 INFO @ Sat, 15 Jan 2022 22:03:39: 14000000 INFO @ Sat, 15 Jan 2022 22:03:41: 14000000 INFO @ Sat, 15 Jan 2022 22:03:46: 15000000 INFO @ Sat, 15 Jan 2022 22:03:47: 8000000 INFO @ Sat, 15 Jan 2022 22:03:51: 15000000 INFO @ Sat, 15 Jan 2022 22:03:53: 16000000 INFO @ Sat, 15 Jan 2022 22:03:56: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:04:00: 17000000 INFO @ Sat, 15 Jan 2022 22:04:00: 16000000 INFO @ Sat, 15 Jan 2022 22:04:06: 10000000 INFO @ Sat, 15 Jan 2022 22:04:07: 18000000 INFO @ Sat, 15 Jan 2022 22:04:10: 17000000 INFO @ Sat, 15 Jan 2022 22:04:14: 19000000 INFO @ Sat, 15 Jan 2022 22:04:16: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:04:20: 18000000 INFO @ Sat, 15 Jan 2022 22:04:21: 20000000 INFO @ Sat, 15 Jan 2022 22:04:25: 12000000 INFO @ Sat, 15 Jan 2022 22:04:28: 21000000 INFO @ Sat, 15 Jan 2022 22:04:29: 19000000 INFO @ Sat, 15 Jan 2022 22:04:34: 22000000 INFO @ Sat, 15 Jan 2022 22:04:35: 13000000 INFO @ Sat, 15 Jan 2022 22:04:39: 20000000 INFO @ Sat, 15 Jan 2022 22:04:41: 23000000 INFO @ Sat, 15 Jan 2022 22:04:45: 14000000 INFO @ Sat, 15 Jan 2022 22:04:48: 24000000 INFO @ Sat, 15 Jan 2022 22:04:49: 21000000 INFO @ Sat, 15 Jan 2022 22:04:55: 25000000 INFO @ Sat, 15 Jan 2022 22:04:56: 15000000 INFO @ Sat, 15 Jan 2022 22:04:57: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:04:57: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:04:57: #1 total tags in treatment: 11660800 INFO @ Sat, 15 Jan 2022 22:04:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:57: #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 22:04:57: #1 tags after filtering in treatment: 8509015 INFO @ Sat, 15 Jan 2022 22:04:57: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:04:57: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:58: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:04:58: Too few paired peaks (0) 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 22:04:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.10_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/SRX4623312/SRX4623312.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:04:58: 22000000 INFO @ Sat, 15 Jan 2022 22:05:06: 16000000 INFO @ Sat, 15 Jan 2022 22:05:07: 23000000 INFO @ Sat, 15 Jan 2022 22:05:16: 17000000 INFO @ Sat, 15 Jan 2022 22:05:17: 24000000 INFO @ Sat, 15 Jan 2022 22:05:26: 25000000 INFO @ Sat, 15 Jan 2022 22:05:27: 18000000 INFO @ Sat, 15 Jan 2022 22:05:30: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:05:30: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:05:30: #1 total tags in treatment: 11660800 INFO @ Sat, 15 Jan 2022 22:05:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:05:30: #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 22:05:30: #1 tags after filtering in treatment: 8509015 INFO @ Sat, 15 Jan 2022 22:05:30: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:05:30: #1 finished! INFO @ Sat, 15 Jan 2022 22:05:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:05:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:05:31: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:05:31: Too few paired peaks (0) 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 22:05:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.05_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/SRX4623312/SRX4623312.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:05:37: 19000000 INFO @ Sat, 15 Jan 2022 22:05:48: 20000000 INFO @ Sat, 15 Jan 2022 22:05:58: 21000000 INFO @ Sat, 15 Jan 2022 22:06:09: 22000000 INFO @ Sat, 15 Jan 2022 22:06:19: 23000000 INFO @ Sat, 15 Jan 2022 22:06:29: 24000000 INFO @ Sat, 15 Jan 2022 22:06:38: 25000000 INFO @ Sat, 15 Jan 2022 22:06:42: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:06:42: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:06:42: #1 total tags in treatment: 11660800 INFO @ Sat, 15 Jan 2022 22:06:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:06:42: #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 22:06:42: #1 tags after filtering in treatment: 8509015 INFO @ Sat, 15 Jan 2022 22:06:42: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:06:42: #1 finished! INFO @ Sat, 15 Jan 2022 22:06:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:06:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:06:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:06:43: Too few paired peaks (0) 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 22:06:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.20_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/SRX4623312/SRX4623312.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623312/SRX4623312.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling