Job ID = 10223906 SRX = SRX4623299 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13090999 spots for SRR7767704/SRR7767704.sra Written 13090999 spots for SRR7767704/SRR7767704.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: 00:04:34 13090999 reads; of these: 13090999 (100.00%) were paired; of these: 1764738 (13.48%) aligned concordantly 0 times 9706603 (74.15%) aligned concordantly exactly 1 time 1619658 (12.37%) aligned concordantly >1 times ---- 1764738 pairs aligned concordantly 0 times; of these: 375034 (21.25%) aligned discordantly 1 time ---- 1389704 pairs aligned 0 times concordantly or discordantly; of these: 2779408 mates make up the pairs; of these: 2471416 (88.92%) aligned 0 times 143084 (5.15%) aligned exactly 1 time 164908 (5.93%) aligned >1 times 90.56% overall alignment rate Time searching: 00:04:34 Overall time: 00:04:34 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] 187391 / 11692204 = 0.0160 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:52:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.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 @ Fri, 16 Oct 2020 08:52:28: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:52:28: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:52:33: 1000000 INFO @ Fri, 16 Oct 2020 08:52:37: 2000000 INFO @ Fri, 16 Oct 2020 08:52:41: 3000000 INFO @ Fri, 16 Oct 2020 08:52:46: 4000000 INFO @ Fri, 16 Oct 2020 08:52:50: 5000000 INFO @ Fri, 16 Oct 2020 08:52:55: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:52:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.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 @ Fri, 16 Oct 2020 08:52:58: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:52:58: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:52:59: 7000000 INFO @ Fri, 16 Oct 2020 08:53:02: 1000000 INFO @ Fri, 16 Oct 2020 08:53:04: 8000000 INFO @ Fri, 16 Oct 2020 08:53:07: 2000000 INFO @ Fri, 16 Oct 2020 08:53:09: 9000000 INFO @ Fri, 16 Oct 2020 08:53:11: 3000000 INFO @ Fri, 16 Oct 2020 08:53:14: 10000000 INFO @ Fri, 16 Oct 2020 08:53:15: 4000000 INFO @ Fri, 16 Oct 2020 08:53:18: 11000000 INFO @ Fri, 16 Oct 2020 08:53:19: 5000000 INFO @ Fri, 16 Oct 2020 08:53:23: 12000000 INFO @ Fri, 16 Oct 2020 08:53:23: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:53:28: 13000000 INFO @ Fri, 16 Oct 2020 08:53:28: 7000000 INFO @ Fri, 16 Oct 2020 08:53:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.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 @ Fri, 16 Oct 2020 08:53:28: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:53:28: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:53:32: 8000000 INFO @ Fri, 16 Oct 2020 08:53:32: 14000000 INFO @ Fri, 16 Oct 2020 08:53:33: 1000000 INFO @ Fri, 16 Oct 2020 08:53:36: 9000000 INFO @ Fri, 16 Oct 2020 08:53:37: 15000000 INFO @ Fri, 16 Oct 2020 08:53:38: 2000000 INFO @ Fri, 16 Oct 2020 08:53:40: 10000000 INFO @ Fri, 16 Oct 2020 08:53:42: 16000000 INFO @ Fri, 16 Oct 2020 08:53:42: 3000000 INFO @ Fri, 16 Oct 2020 08:53:44: 11000000 INFO @ Fri, 16 Oct 2020 08:53:46: 17000000 INFO @ Fri, 16 Oct 2020 08:53:47: 4000000 INFO @ Fri, 16 Oct 2020 08:53:49: 12000000 INFO @ Fri, 16 Oct 2020 08:53:51: 18000000 INFO @ Fri, 16 Oct 2020 08:53:51: 5000000 INFO @ Fri, 16 Oct 2020 08:53:53: 13000000 INFO @ Fri, 16 Oct 2020 08:53:55: 19000000 INFO @ Fri, 16 Oct 2020 08:53:56: 6000000 INFO @ Fri, 16 Oct 2020 08:53:57: 14000000 INFO @ Fri, 16 Oct 2020 08:54:00: 20000000 INFO @ Fri, 16 Oct 2020 08:54:00: 7000000 INFO @ Fri, 16 Oct 2020 08:54:02: 15000000 INFO @ Fri, 16 Oct 2020 08:54:05: 21000000 INFO @ Fri, 16 Oct 2020 08:54:05: 8000000 INFO @ Fri, 16 Oct 2020 08:54:06: 16000000 INFO @ Fri, 16 Oct 2020 08:54:09: 22000000 INFO @ Fri, 16 Oct 2020 08:54:10: 9000000 INFO @ Fri, 16 Oct 2020 08:54:11: 17000000 INFO @ Fri, 16 Oct 2020 08:54:14: 23000000 INFO @ Fri, 16 Oct 2020 08:54:14: 10000000 INFO @ Fri, 16 Oct 2020 08:54:16: 18000000 INFO @ Fri, 16 Oct 2020 08:54:16: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:54:16: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:54:16: #1 total tags in treatment: 11140564 INFO @ Fri, 16 Oct 2020 08:54:16: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:54:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:54:16: #1 tags after filtering in treatment: 8243078 INFO @ Fri, 16 Oct 2020 08:54:16: #1 Redundant rate of treatment: 0.26 INFO @ Fri, 16 Oct 2020 08:54:16: #1 finished! INFO @ Fri, 16 Oct 2020 08:54:16: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:54:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:54:16: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:54:16: 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 @ Fri, 16 Oct 2020 08:54:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05_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/SRX4623299/SRX4623299.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:54:19: 11000000 INFO @ Fri, 16 Oct 2020 08:54:20: 19000000 INFO @ Fri, 16 Oct 2020 08:54:23: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 08:54:25: 20000000 INFO @ Fri, 16 Oct 2020 08:54:28: 13000000 INFO @ Fri, 16 Oct 2020 08:54:30: 21000000 INFO @ Fri, 16 Oct 2020 08:54:32: 14000000 INFO @ Fri, 16 Oct 2020 08:54:34: 22000000 INFO @ Fri, 16 Oct 2020 08:54:37: 15000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 08:54:39: 23000000 INFO @ Fri, 16 Oct 2020 08:54:40: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:54:40: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:54:40: #1 total tags in treatment: 11140564 INFO @ Fri, 16 Oct 2020 08:54:40: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:54:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:54:41: #1 tags after filtering in treatment: 8243078 INFO @ Fri, 16 Oct 2020 08:54:41: #1 Redundant rate of treatment: 0.26 INFO @ Fri, 16 Oct 2020 08:54:41: #1 finished! INFO @ Fri, 16 Oct 2020 08:54:41: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:54:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:54:41: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:54:41: 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 @ Fri, 16 Oct 2020 08:54:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10_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/SRX4623299/SRX4623299.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:54:41: 16000000 INFO @ Fri, 16 Oct 2020 08:54:46: 17000000 INFO @ Fri, 16 Oct 2020 08:54:50: 18000000 INFO @ Fri, 16 Oct 2020 08:54:55: 19000000 INFO @ Fri, 16 Oct 2020 08:54:59: 20000000 INFO @ Fri, 16 Oct 2020 08:55:03: 21000000 INFO @ Fri, 16 Oct 2020 08:55:08: 22000000 INFO @ Fri, 16 Oct 2020 08:55:12: 23000000 INFO @ Fri, 16 Oct 2020 08:55:14: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:55:14: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:55:14: #1 total tags in treatment: 11140564 INFO @ Fri, 16 Oct 2020 08:55:14: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:55:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:55:14: #1 tags after filtering in treatment: 8243078 INFO @ Fri, 16 Oct 2020 08:55:14: #1 Redundant rate of treatment: 0.26 INFO @ Fri, 16 Oct 2020 08:55:14: #1 finished! INFO @ Fri, 16 Oct 2020 08:55:14: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:55:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:55:14: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:55:14: 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 @ Fri, 16 Oct 2020 08:55:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling