Job ID = 7115623 SRX = SRX8539207 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T06:11:24 prefetch.2.10.7: 1) Downloading 'SRR12006026'... 2020-07-22T06:11:24 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:12:19 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:12:20 prefetch.2.10.7: 'SRR12006026' is valid 2020-07-22T06:12:20 prefetch.2.10.7: 1) 'SRR12006026' was downloaded successfully Read 14982518 spots for SRR12006026/SRR12006026.sra Written 14982518 spots for SRR12006026/SRR12006026.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: 00:01:41 14982518 reads; of these: 14982518 (100.00%) were unpaired; of these: 2090292 (13.95%) aligned 0 times 9718978 (64.87%) aligned exactly 1 time 3173248 (21.18%) aligned >1 times 86.05% overall alignment rate Time searching: 00:01:41 Overall time: 00:01:41 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_rmdupse_core] 4893767 / 12892226 = 0.3796 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 15:17:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.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 @ Wed, 22 Jul 2020 15:17:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:17:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:17:46: 1000000 INFO @ Wed, 22 Jul 2020 15:17:51: 2000000 INFO @ Wed, 22 Jul 2020 15:17:57: 3000000 INFO @ Wed, 22 Jul 2020 15:18:03: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 15:18:09: 5000000 INFO @ Wed, 22 Jul 2020 15:18:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.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 @ Wed, 22 Jul 2020 15:18:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:15: 6000000 INFO @ Wed, 22 Jul 2020 15:18:16: 1000000 INFO @ Wed, 22 Jul 2020 15:18:21: 7000000 INFO @ Wed, 22 Jul 2020 15:18:22: 2000000 INFO @ Wed, 22 Jul 2020 15:18:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:18:27: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:18:27: #1 total tags in treatment: 7998459 INFO @ Wed, 22 Jul 2020 15:18:27: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:18:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:18:27: #1 tags after filtering in treatment: 7998459 INFO @ Wed, 22 Jul 2020 15:18:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:18:27: #1 finished! INFO @ Wed, 22 Jul 2020 15:18:27: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:18:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:18:27: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:18:27: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 15:18:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.05_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/SRX8539207/SRX8539207.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:18:28: 3000000 INFO @ Wed, 22 Jul 2020 15:18:34: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 15:18:39: 5000000 INFO @ Wed, 22 Jul 2020 15:18:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.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 @ Wed, 22 Jul 2020 15:18:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:45: 6000000 INFO @ Wed, 22 Jul 2020 15:18:46: 1000000 INFO @ Wed, 22 Jul 2020 15:18:51: 7000000 INFO @ Wed, 22 Jul 2020 15:18:52: 2000000 INFO @ Wed, 22 Jul 2020 15:18:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:18:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:18:58: #1 total tags in treatment: 7998459 INFO @ Wed, 22 Jul 2020 15:18:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:18:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:18:58: #1 tags after filtering in treatment: 7998459 INFO @ Wed, 22 Jul 2020 15:18:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:18:58: #1 finished! INFO @ Wed, 22 Jul 2020 15:18:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:18:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:18:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:18:58: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 15:18:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.10_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/SRX8539207/SRX8539207.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:18:59: 3000000 INFO @ Wed, 22 Jul 2020 15:19:04: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:19:10: 5000000 INFO @ Wed, 22 Jul 2020 15:19:16: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:19:21: 7000000 INFO @ Wed, 22 Jul 2020 15:19:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:19:27: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:19:27: #1 total tags in treatment: 7998459 INFO @ Wed, 22 Jul 2020 15:19:27: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:19:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:19:27: #1 tags after filtering in treatment: 7998459 INFO @ Wed, 22 Jul 2020 15:19:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:19:27: #1 finished! INFO @ Wed, 22 Jul 2020 15:19:27: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:19:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:19:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:19:28: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 15:19:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.20_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/SRX8539207/SRX8539207.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539207/SRX8539207.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling