Job ID = 14521113 SRX = SRX10828612 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6717947 spots for SRR14480437/SRR14480437.sra Written 6717947 spots for SRR14480437/SRR14480437.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: 00:02:46 6717947 reads; of these: 6717947 (100.00%) were paired; of these: 1984500 (29.54%) aligned concordantly 0 times 4017598 (59.80%) aligned concordantly exactly 1 time 715849 (10.66%) aligned concordantly >1 times ---- 1984500 pairs aligned concordantly 0 times; of these: 61129 (3.08%) aligned discordantly 1 time ---- 1923371 pairs aligned 0 times concordantly or discordantly; of these: 3846742 mates make up the pairs; of these: 3721170 (96.74%) aligned 0 times 88183 (2.29%) aligned exactly 1 time 37389 (0.97%) aligned >1 times 72.30% overall alignment rate Time searching: 00:02:46 Overall time: 00:02:46 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] 1126998 / 4781703 = 0.2357 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 20:33:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.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 20:33:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:33:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:33:13: 1000000 INFO @ Sat, 15 Jan 2022 20:33:18: 2000000 INFO @ Sat, 15 Jan 2022 20:33:23: 3000000 INFO @ Sat, 15 Jan 2022 20:33:29: 4000000 INFO @ Sat, 15 Jan 2022 20:33:34: 5000000 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 20:33:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.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 20:33:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:33:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:33:39: 6000000 INFO @ Sat, 15 Jan 2022 20:33:43: 1000000 INFO @ Sat, 15 Jan 2022 20:33:44: 7000000 INFO @ Sat, 15 Jan 2022 20:33:47: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:33:47: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:33:47: #1 total tags in treatment: 3612046 INFO @ Sat, 15 Jan 2022 20:33:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:33:47: #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 20:33:47: #1 tags after filtering in treatment: 2592462 INFO @ Sat, 15 Jan 2022 20:33:47: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 20:33:47: #1 finished! INFO @ Sat, 15 Jan 2022 20:33:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:33:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:33:47: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 20:33:47: Too few paired peaks (26) 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 20:33:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.05_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/SRX10828612/SRX10828612.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:33:48: 2000000 INFO @ Sat, 15 Jan 2022 20:33:52: 3000000 INFO @ Sat, 15 Jan 2022 20:33:57: 4000000 INFO @ Sat, 15 Jan 2022 20:34:02: 5000000 INFO @ Sat, 15 Jan 2022 20:34:06: 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 20:34:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.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 20:34:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:34:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:34:11: 7000000 INFO @ Sat, 15 Jan 2022 20:34:13: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:34:13: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:34:13: #1 total tags in treatment: 3612046 INFO @ Sat, 15 Jan 2022 20:34:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:34:13: #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 20:34:13: #1 tags after filtering in treatment: 2592462 INFO @ Sat, 15 Jan 2022 20:34:13: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 20:34:13: #1 finished! INFO @ Sat, 15 Jan 2022 20:34:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:34:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:34:13: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 20:34:13: Too few paired peaks (26) 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 20:34:13: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 20:34:13: 1000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.10_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/SRX10828612/SRX10828612.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:34:18: 2000000 INFO @ Sat, 15 Jan 2022 20:34:23: 3000000 INFO @ Sat, 15 Jan 2022 20:34:29: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:34:34: 5000000 INFO @ Sat, 15 Jan 2022 20:34:39: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:34:44: 7000000 INFO @ Sat, 15 Jan 2022 20:34:46: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:34:46: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:34:46: #1 total tags in treatment: 3612046 INFO @ Sat, 15 Jan 2022 20:34:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:34:46: #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 20:34:46: #1 tags after filtering in treatment: 2592462 INFO @ Sat, 15 Jan 2022 20:34:46: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 20:34:46: #1 finished! INFO @ Sat, 15 Jan 2022 20:34:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:34:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:34:46: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 20:34:46: Too few paired peaks (26) 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 20:34:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.20_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/SRX10828612/SRX10828612.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828612/SRX10828612.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling