Job ID = 14521120 SRX = SRX10828618 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6486596 spots for SRR14480443/SRR14480443.sra Written 6486596 spots for SRR14480443/SRR14480443.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: 00:03:10 6486596 reads; of these: 6486596 (100.00%) were paired; of these: 1125072 (17.34%) aligned concordantly 0 times 4543286 (70.04%) aligned concordantly exactly 1 time 818238 (12.61%) aligned concordantly >1 times ---- 1125072 pairs aligned concordantly 0 times; of these: 207794 (18.47%) aligned discordantly 1 time ---- 917278 pairs aligned 0 times concordantly or discordantly; of these: 1834556 mates make up the pairs; of these: 1638886 (89.33%) aligned 0 times 116643 (6.36%) aligned exactly 1 time 79027 (4.31%) aligned >1 times 87.37% overall alignment rate Time searching: 00:03:10 Overall time: 00:03:10 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] 1326334 / 5560930 = 0.2385 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 20:34:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.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 20:34:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:34:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:34:28: 1000000 INFO @ Sat, 15 Jan 2022 20:34:33: 2000000 INFO @ Sat, 15 Jan 2022 20:34:39: 3000000 INFO @ Sat, 15 Jan 2022 20:34:44: 4000000 INFO @ Sat, 15 Jan 2022 20:34:49: 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 20:34:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.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 20:34:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:34:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:34:55: 6000000 INFO @ Sat, 15 Jan 2022 20:34:58: 1000000 INFO @ Sat, 15 Jan 2022 20:35:00: 7000000 INFO @ Sat, 15 Jan 2022 20:35:04: 2000000 INFO @ Sat, 15 Jan 2022 20:35:06: 8000000 INFO @ Sat, 15 Jan 2022 20:35:10: 3000000 INFO @ Sat, 15 Jan 2022 20:35:10: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:35:10: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:35:10: #1 total tags in treatment: 4073240 INFO @ Sat, 15 Jan 2022 20:35:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:35:10: #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 20:35:10: #1 tags after filtering in treatment: 2877001 INFO @ Sat, 15 Jan 2022 20:35:10: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 20:35:10: #1 finished! INFO @ Sat, 15 Jan 2022 20:35:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:35:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:35:10: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 20:35:10: Too few paired peaks (25) 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 20:35:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.05_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/SRX10828618/SRX10828618.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:35:15: 4000000 INFO @ Sat, 15 Jan 2022 20:35:21: 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 20:35:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.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 20:35:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:26: 6000000 INFO @ Sat, 15 Jan 2022 20:35:28: 1000000 INFO @ Sat, 15 Jan 2022 20:35:32: 7000000 INFO @ Sat, 15 Jan 2022 20:35:33: 2000000 INFO @ Sat, 15 Jan 2022 20:35:38: 8000000 INFO @ Sat, 15 Jan 2022 20:35:39: 3000000 INFO @ Sat, 15 Jan 2022 20:35:42: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:35:42: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:35:42: #1 total tags in treatment: 4073240 INFO @ Sat, 15 Jan 2022 20:35:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:35:42: #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 20:35:42: #1 tags after filtering in treatment: 2877001 INFO @ Sat, 15 Jan 2022 20:35:42: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 20:35:42: #1 finished! INFO @ Sat, 15 Jan 2022 20:35:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:35:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:35:42: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 20:35:42: Too few paired peaks (25) 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 20:35:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.10_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/SRX10828618/SRX10828618.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:35:44: 4000000 INFO @ Sat, 15 Jan 2022 20:35:49: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:35:54: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:35:58: 7000000 INFO @ Sat, 15 Jan 2022 20:36:03: 8000000 INFO @ Sat, 15 Jan 2022 20:36:06: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:36:06: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:36:06: #1 total tags in treatment: 4073240 INFO @ Sat, 15 Jan 2022 20:36:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:36:06: #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 20:36:06: #1 tags after filtering in treatment: 2877001 INFO @ Sat, 15 Jan 2022 20:36:06: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 20:36:06: #1 finished! INFO @ Sat, 15 Jan 2022 20:36:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:36:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:36:07: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 20:36:07: Too few paired peaks (25) 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 20:36:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.20_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/SRX10828618/SRX10828618.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828618/SRX10828618.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling