Job ID = 12531592 SRX = SRX3789223 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 26091220 spots for SRR6833143/SRR6833143.sra Written 26091220 spots for SRR6833143/SRR6833143.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: 00:17:59 26091220 reads; of these: 26091220 (100.00%) were paired; of these: 3874876 (14.85%) aligned concordantly 0 times 12650278 (48.48%) aligned concordantly exactly 1 time 9566066 (36.66%) aligned concordantly >1 times ---- 3874876 pairs aligned concordantly 0 times; of these: 1107022 (28.57%) aligned discordantly 1 time ---- 2767854 pairs aligned 0 times concordantly or discordantly; of these: 5535708 mates make up the pairs; of these: 3151245 (56.93%) aligned 0 times 424374 (7.67%) aligned exactly 1 time 1960089 (35.41%) aligned >1 times 93.96% overall alignment rate Time searching: 00:17:59 Overall time: 00:17:59 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 20 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] 12065020 / 23040470 = 0.5236 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:51:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.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, 17 Apr 2021 08:51:44: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:51:44: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:51:50: 1000000 INFO @ Sat, 17 Apr 2021 08:51:56: 2000000 INFO @ Sat, 17 Apr 2021 08:52:02: 3000000 INFO @ Sat, 17 Apr 2021 08:52:08: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:52:13: 5000000 INFO @ Sat, 17 Apr 2021 08:52:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.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, 17 Apr 2021 08:52:14: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:52:14: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:52:20: 6000000 INFO @ Sat, 17 Apr 2021 08:52:21: 1000000 INFO @ Sat, 17 Apr 2021 08:52:26: 7000000 INFO @ Sat, 17 Apr 2021 08:52:27: 2000000 INFO @ Sat, 17 Apr 2021 08:52:32: 8000000 INFO @ Sat, 17 Apr 2021 08:52:34: 3000000 INFO @ Sat, 17 Apr 2021 08:52:39: 9000000 INFO @ Sat, 17 Apr 2021 08:52:40: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 08:52:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.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, 17 Apr 2021 08:52:44: #1 read tag files... INFO @ Sat, 17 Apr 2021 08:52:44: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 08:52:46: 10000000 INFO @ Sat, 17 Apr 2021 08:52:47: 5000000 INFO @ Sat, 17 Apr 2021 08:52:51: 1000000 INFO @ Sat, 17 Apr 2021 08:52:52: 11000000 INFO @ Sat, 17 Apr 2021 08:52:53: 6000000 INFO @ Sat, 17 Apr 2021 08:52:57: 2000000 INFO @ Sat, 17 Apr 2021 08:52:59: 12000000 INFO @ Sat, 17 Apr 2021 08:52:59: 7000000 INFO @ Sat, 17 Apr 2021 08:53:04: 3000000 INFO @ Sat, 17 Apr 2021 08:53:05: 8000000 INFO @ Sat, 17 Apr 2021 08:53:06: 13000000 INFO @ Sat, 17 Apr 2021 08:53:10: 4000000 INFO @ Sat, 17 Apr 2021 08:53:12: 9000000 INFO @ Sat, 17 Apr 2021 08:53:12: 14000000 INFO @ Sat, 17 Apr 2021 08:53:17: 5000000 INFO @ Sat, 17 Apr 2021 08:53:18: 10000000 INFO @ Sat, 17 Apr 2021 08:53:19: 15000000 INFO @ Sat, 17 Apr 2021 08:53:23: 6000000 INFO @ Sat, 17 Apr 2021 08:53:25: 11000000 INFO @ Sat, 17 Apr 2021 08:53:25: 16000000 INFO @ Sat, 17 Apr 2021 08:53:29: 7000000 INFO @ Sat, 17 Apr 2021 08:53:32: 12000000 INFO @ Sat, 17 Apr 2021 08:53:32: 17000000 INFO @ Sat, 17 Apr 2021 08:53:36: 8000000 INFO @ Sat, 17 Apr 2021 08:53:38: 13000000 INFO @ Sat, 17 Apr 2021 08:53:38: 18000000 INFO @ Sat, 17 Apr 2021 08:53:43: 9000000 INFO @ Sat, 17 Apr 2021 08:53:44: 14000000 INFO @ Sat, 17 Apr 2021 08:53:45: 19000000 INFO @ Sat, 17 Apr 2021 08:53:49: 10000000 INFO @ Sat, 17 Apr 2021 08:53:51: 15000000 INFO @ Sat, 17 Apr 2021 08:53:51: 20000000 INFO @ Sat, 17 Apr 2021 08:53:56: 11000000 INFO @ Sat, 17 Apr 2021 08:53:57: 16000000 INFO @ Sat, 17 Apr 2021 08:53:58: 21000000 INFO @ Sat, 17 Apr 2021 08:54:02: 12000000 INFO @ Sat, 17 Apr 2021 08:54:03: 17000000 INFO @ Sat, 17 Apr 2021 08:54:04: 22000000 INFO @ Sat, 17 Apr 2021 08:54:09: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 08:54:10: 18000000 INFO @ Sat, 17 Apr 2021 08:54:11: 23000000 INFO @ Sat, 17 Apr 2021 08:54:15: 14000000 INFO @ Sat, 17 Apr 2021 08:54:16: 19000000 INFO @ Sat, 17 Apr 2021 08:54:17: 24000000 INFO @ Sat, 17 Apr 2021 08:54:21: 15000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 08:54:23: 20000000 INFO @ Sat, 17 Apr 2021 08:54:23: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 08:54:23: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 08:54:23: #1 total tags in treatment: 10591054 INFO @ Sat, 17 Apr 2021 08:54:23: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:54:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:54:23: #1 tags after filtering in treatment: 4346204 INFO @ Sat, 17 Apr 2021 08:54:23: #1 Redundant rate of treatment: 0.59 INFO @ Sat, 17 Apr 2021 08:54:23: #1 finished! INFO @ Sat, 17 Apr 2021 08:54:23: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:54:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:54:24: #2 number of paired peaks: 23 WARNING @ Sat, 17 Apr 2021 08:54:24: Too few paired peaks (23) 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, 17 Apr 2021 08:54:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 08:54:28: 16000000 INFO @ Sat, 17 Apr 2021 08:54:29: 21000000 INFO @ Sat, 17 Apr 2021 08:54:34: 17000000 INFO @ Sat, 17 Apr 2021 08:54:36: 22000000 INFO @ Sat, 17 Apr 2021 08:54:40: 18000000 INFO @ Sat, 17 Apr 2021 08:54:42: 23000000 INFO @ Sat, 17 Apr 2021 08:54:46: 19000000 INFO @ Sat, 17 Apr 2021 08:54:48: 24000000 INFO @ Sat, 17 Apr 2021 08:54:53: 20000000 INFO @ Sat, 17 Apr 2021 08:54:54: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 08:54:54: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 08:54:54: #1 total tags in treatment: 10591054 INFO @ Sat, 17 Apr 2021 08:54:54: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:54:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:54:54: #1 tags after filtering in treatment: 4346204 INFO @ Sat, 17 Apr 2021 08:54:54: #1 Redundant rate of treatment: 0.59 INFO @ Sat, 17 Apr 2021 08:54:54: #1 finished! INFO @ Sat, 17 Apr 2021 08:54:54: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:54:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:54:55: #2 number of paired peaks: 23 WARNING @ Sat, 17 Apr 2021 08:54:55: Too few paired peaks (23) 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, 17 Apr 2021 08:54:55: Process for pairing-model is terminated! INFO @ Sat, 17 Apr 2021 08:54:59: 21000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.10_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/SRX3789223/SRX3789223.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 08:55:05: 22000000 INFO @ Sat, 17 Apr 2021 08:55:10: 23000000 INFO @ Sat, 17 Apr 2021 08:55:16: 24000000 INFO @ Sat, 17 Apr 2021 08:55:21: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 08:55:21: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 08:55:21: #1 total tags in treatment: 10591054 INFO @ Sat, 17 Apr 2021 08:55:21: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 08:55:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 08:55:21: #1 tags after filtering in treatment: 4346204 INFO @ Sat, 17 Apr 2021 08:55:21: #1 Redundant rate of treatment: 0.59 INFO @ Sat, 17 Apr 2021 08:55:21: #1 finished! INFO @ Sat, 17 Apr 2021 08:55:21: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 08:55:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 08:55:21: #2 number of paired peaks: 23 WARNING @ Sat, 17 Apr 2021 08:55:21: Too few paired peaks (23) 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, 17 Apr 2021 08:55:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.20_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/SRX3789223/SRX3789223.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789223/SRX3789223.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling