Job ID = 14521121 SRX = SRX10828619 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7788850 spots for SRR14480444/SRR14480444.sra Written 7788850 spots for SRR14480444/SRR14480444.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: 00:03:28 7788850 reads; of these: 7788850 (100.00%) were paired; of these: 2456006 (31.53%) aligned concordantly 0 times 4431296 (56.89%) aligned concordantly exactly 1 time 901548 (11.57%) aligned concordantly >1 times ---- 2456006 pairs aligned concordantly 0 times; of these: 77097 (3.14%) aligned discordantly 1 time ---- 2378909 pairs aligned 0 times concordantly or discordantly; of these: 4757818 mates make up the pairs; of these: 4593464 (96.55%) aligned 0 times 108161 (2.27%) aligned exactly 1 time 56193 (1.18%) aligned >1 times 70.51% overall alignment rate Time searching: 00:03:28 Overall time: 00:03:28 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] 2136865 / 5391419 = 0.3963 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 20:34:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.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 20:34:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:34:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:34:30: 1000000 INFO @ Sat, 15 Jan 2022 20:34:37: 2000000 INFO @ Sat, 15 Jan 2022 20:34:43: 3000000 INFO @ Sat, 15 Jan 2022 20:34:49: 4000000 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 20:34:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.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 20:34:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:34:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:34:56: 5000000 INFO @ Sat, 15 Jan 2022 20:35:01: 1000000 INFO @ Sat, 15 Jan 2022 20:35:03: 6000000 INFO @ Sat, 15 Jan 2022 20:35:07: 2000000 INFO @ Sat, 15 Jan 2022 20:35:08: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:35:08: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:35:08: #1 total tags in treatment: 3213231 INFO @ Sat, 15 Jan 2022 20:35:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:35:08: #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 20:35:08: #1 tags after filtering in treatment: 2354590 INFO @ Sat, 15 Jan 2022 20:35:08: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 20:35:08: #1 finished! INFO @ Sat, 15 Jan 2022 20:35:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:35:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:35:08: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:35:08: Too few paired peaks (28) 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 20:35:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.05_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/SRX10828619/SRX10828619.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:35:13: 3000000 INFO @ Sat, 15 Jan 2022 20:35:18: 4000000 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 20:35:23: 5000000 INFO @ Sat, 15 Jan 2022 20:35:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.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 20:35:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:29: 6000000 INFO @ Sat, 15 Jan 2022 20:35:30: 1000000 INFO @ Sat, 15 Jan 2022 20:35:33: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:35:33: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:35:33: #1 total tags in treatment: 3213231 INFO @ Sat, 15 Jan 2022 20:35:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:35:33: #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 20:35:33: #1 tags after filtering in treatment: 2354590 INFO @ Sat, 15 Jan 2022 20:35:33: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 20:35:33: #1 finished! INFO @ Sat, 15 Jan 2022 20:35:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:35:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:35:33: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:35:33: Too few paired peaks (28) 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 20:35:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.10_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/SRX10828619/SRX10828619.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:35:35: 2000000 INFO @ Sat, 15 Jan 2022 20:35:41: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:35:46: 4000000 INFO @ Sat, 15 Jan 2022 20:35:51: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:35:57: 6000000 INFO @ Sat, 15 Jan 2022 20:36:00: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:36:00: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:36:00: #1 total tags in treatment: 3213231 INFO @ Sat, 15 Jan 2022 20:36:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:36:00: #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 20:36:00: #1 tags after filtering in treatment: 2354590 INFO @ Sat, 15 Jan 2022 20:36:00: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 20:36:00: #1 finished! INFO @ Sat, 15 Jan 2022 20:36:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:36:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:36:00: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:36:00: Too few paired peaks (28) 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 20:36:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.20_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/SRX10828619/SRX10828619.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828619/SRX10828619.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling