Job ID = 14521743 SRX = ERX4439633 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7529878 spots for ERR4501562/ERR4501562.sra Written 7529878 spots for ERR4501562/ERR4501562.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: 00:08:10 7529878 reads; of these: 7529878 (100.00%) were paired; of these: 999958 (13.28%) aligned concordantly 0 times 6005053 (79.75%) aligned concordantly exactly 1 time 524867 (6.97%) aligned concordantly >1 times ---- 999958 pairs aligned concordantly 0 times; of these: 410729 (41.07%) aligned discordantly 1 time ---- 589229 pairs aligned 0 times concordantly or discordantly; of these: 1178458 mates make up the pairs; of these: 1029283 (87.34%) aligned 0 times 73780 (6.26%) aligned exactly 1 time 75395 (6.40%) aligned >1 times 93.17% overall alignment rate Time searching: 00:08:10 Overall time: 00:08:10 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] 576761 / 6905453 = 0.0835 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 21:51:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.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 21:51:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:51:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:51:09: 1000000 INFO @ Sat, 15 Jan 2022 21:51:18: 2000000 INFO @ Sat, 15 Jan 2022 21:51:27: 3000000 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 21:51:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.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 21:51:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:51:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:51:37: 4000000 INFO @ Sat, 15 Jan 2022 21:51:43: 1000000 INFO @ Sat, 15 Jan 2022 21:51:47: 5000000 INFO @ Sat, 15 Jan 2022 21:51:53: 2000000 INFO @ Sat, 15 Jan 2022 21:51:57: 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 21:52:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.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 21:52:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:04: 3000000 INFO @ Sat, 15 Jan 2022 21:52:08: 7000000 INFO @ Sat, 15 Jan 2022 21:52:12: 1000000 INFO @ Sat, 15 Jan 2022 21:52:15: 4000000 INFO @ Sat, 15 Jan 2022 21:52:20: 8000000 INFO @ Sat, 15 Jan 2022 21:52:23: 2000000 INFO @ Sat, 15 Jan 2022 21:52:26: 5000000 INFO @ Sat, 15 Jan 2022 21:52:31: 9000000 INFO @ Sat, 15 Jan 2022 21:52:34: 3000000 INFO @ Sat, 15 Jan 2022 21:52:37: 6000000 INFO @ Sat, 15 Jan 2022 21:52:41: 10000000 INFO @ Sat, 15 Jan 2022 21:52:47: 4000000 INFO @ Sat, 15 Jan 2022 21:52:49: 7000000 INFO @ Sat, 15 Jan 2022 21:52:52: 11000000 INFO @ Sat, 15 Jan 2022 21:52:58: 5000000 INFO @ Sat, 15 Jan 2022 21:53:00: 8000000 INFO @ Sat, 15 Jan 2022 21:53:03: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:53:10: 6000000 INFO @ Sat, 15 Jan 2022 21:53:10: 9000000 INFO @ Sat, 15 Jan 2022 21:53:12: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:53:12: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:53:12: #1 total tags in treatment: 5958931 INFO @ Sat, 15 Jan 2022 21:53:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:12: #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 21:53:12: #1 tags after filtering in treatment: 3829861 INFO @ Sat, 15 Jan 2022 21:53:12: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:53:12: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:13: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:53:13: Too few paired peaks (1) 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 21:53:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.05_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/ERX4439633/ERX4439633.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:53:20: 7000000 INFO @ Sat, 15 Jan 2022 21:53:21: 10000000 INFO @ Sat, 15 Jan 2022 21:53:30: 8000000 INFO @ Sat, 15 Jan 2022 21:53:32: 11000000 INFO @ Sat, 15 Jan 2022 21:53:40: 9000000 INFO @ Sat, 15 Jan 2022 21:53:43: 12000000 INFO @ Sat, 15 Jan 2022 21:53:50: 10000000 INFO @ Sat, 15 Jan 2022 21:53:53: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:53:53: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:53:53: #1 total tags in treatment: 5958931 INFO @ Sat, 15 Jan 2022 21:53:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:53: #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 21:53:53: #1 tags after filtering in treatment: 3829861 INFO @ Sat, 15 Jan 2022 21:53:53: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:53:53: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:53: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:53:53: Too few paired peaks (1) 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 21:53:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.10_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/ERX4439633/ERX4439633.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:54:00: 11000000 INFO @ Sat, 15 Jan 2022 21:54:10: 12000000 INFO @ Sat, 15 Jan 2022 21:54:19: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:54:19: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:54:19: #1 total tags in treatment: 5958931 INFO @ Sat, 15 Jan 2022 21:54:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:54:19: #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 21:54:19: #1 tags after filtering in treatment: 3829861 INFO @ Sat, 15 Jan 2022 21:54:19: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 15 Jan 2022 21:54:19: #1 finished! INFO @ Sat, 15 Jan 2022 21:54:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:54:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:54:19: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:54:19: Too few paired peaks (1) 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 21:54:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.20_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/ERX4439633/ERX4439633.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439633/ERX4439633.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling