Job ID = 14521674 SRX = SRX9399144 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7381734 spots for SRR12935425/SRR12935425.sra Written 7381734 spots for SRR12935425/SRR12935425.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: 00:02:58 7381734 reads; of these: 7381734 (100.00%) were paired; of these: 1018899 (13.80%) aligned concordantly 0 times 5750541 (77.90%) aligned concordantly exactly 1 time 612294 (8.29%) aligned concordantly >1 times ---- 1018899 pairs aligned concordantly 0 times; of these: 148673 (14.59%) aligned discordantly 1 time ---- 870226 pairs aligned 0 times concordantly or discordantly; of these: 1740452 mates make up the pairs; of these: 1417033 (81.42%) aligned 0 times 256405 (14.73%) aligned exactly 1 time 67014 (3.85%) aligned >1 times 90.40% overall alignment rate Time searching: 00:02:58 Overall time: 00:02:58 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] 1003682 / 6497074 = 0.1545 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 21:28:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.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 21:28:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:28:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:28:51: 1000000 INFO @ Sat, 15 Jan 2022 21:28:56: 2000000 INFO @ Sat, 15 Jan 2022 21:29:00: 3000000 INFO @ Sat, 15 Jan 2022 21:29:04: 4000000 INFO @ Sat, 15 Jan 2022 21:29:09: 5000000 INFO @ Sat, 15 Jan 2022 21:29:13: 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 21:29:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.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 21:29:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:29:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:29:18: 7000000 INFO @ Sat, 15 Jan 2022 21:29:22: 1000000 INFO @ Sat, 15 Jan 2022 21:29:23: 8000000 INFO @ Sat, 15 Jan 2022 21:29:27: 2000000 INFO @ Sat, 15 Jan 2022 21:29:28: 9000000 INFO @ Sat, 15 Jan 2022 21:29:32: 3000000 INFO @ Sat, 15 Jan 2022 21:29:32: 10000000 INFO @ Sat, 15 Jan 2022 21:29:36: 4000000 INFO @ Sat, 15 Jan 2022 21:29:37: 11000000 INFO @ Sat, 15 Jan 2022 21:29:39: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:29:39: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:29:39: #1 total tags in treatment: 5369538 INFO @ Sat, 15 Jan 2022 21:29:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:39: #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 21:29:39: #1 tags after filtering in treatment: 3577027 INFO @ Sat, 15 Jan 2022 21:29:39: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:29:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:39: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:29:39: 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 21:29:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.05_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/SRX9399144/SRX9399144.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:29:41: 5000000 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 21:29:46: 6000000 INFO @ Sat, 15 Jan 2022 21:29:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.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 21:29:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:29:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:29:51: 7000000 INFO @ Sat, 15 Jan 2022 21:29:53: 1000000 INFO @ Sat, 15 Jan 2022 21:29:57: 8000000 INFO @ Sat, 15 Jan 2022 21:29:58: 2000000 INFO @ Sat, 15 Jan 2022 21:30:02: 9000000 INFO @ Sat, 15 Jan 2022 21:30:04: 3000000 INFO @ Sat, 15 Jan 2022 21:30:07: 10000000 INFO @ Sat, 15 Jan 2022 21:30:10: 4000000 INFO @ Sat, 15 Jan 2022 21:30:13: 11000000 INFO @ Sat, 15 Jan 2022 21:30:14: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:30:14: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:30:14: #1 total tags in treatment: 5369538 INFO @ Sat, 15 Jan 2022 21:30:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:14: #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 21:30:14: #1 tags after filtering in treatment: 3577027 INFO @ Sat, 15 Jan 2022 21:30:14: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:30:14: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:30:15: 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 21:30:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.10_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/SRX9399144/SRX9399144.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:30:16: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:30:21: 6000000 INFO @ Sat, 15 Jan 2022 21:30:26: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:30:32: 8000000 INFO @ Sat, 15 Jan 2022 21:30:37: 9000000 INFO @ Sat, 15 Jan 2022 21:30:42: 10000000 INFO @ Sat, 15 Jan 2022 21:30:48: 11000000 INFO @ Sat, 15 Jan 2022 21:30:49: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:30:49: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:30:49: #1 total tags in treatment: 5369538 INFO @ Sat, 15 Jan 2022 21:30:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:49: #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 21:30:49: #1 tags after filtering in treatment: 3577027 INFO @ Sat, 15 Jan 2022 21:30:49: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:30:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:50: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:30:50: 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 21:30:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399144/SRX9399144.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling