Job ID = 6528314 SRX = SRX5343134 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:52:13 prefetch.2.10.7: 1) Downloading 'SRR8540834'... 2020-06-29T14:52:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:53:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:53:20 prefetch.2.10.7: 'SRR8540834' is valid 2020-06-29T14:53:20 prefetch.2.10.7: 1) 'SRR8540834' was downloaded successfully 2020-06-29T14:53:20 prefetch.2.10.7: 'SRR8540834' has 0 unresolved dependencies Read 14324589 spots for SRR8540834/SRR8540834.sra Written 14324589 spots for SRR8540834/SRR8540834.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:37 14324589 reads; of these: 14324589 (100.00%) were unpaired; of these: 1357332 (9.48%) aligned 0 times 10954810 (76.48%) aligned exactly 1 time 2012447 (14.05%) aligned >1 times 90.52% overall alignment rate Time searching: 00:04:38 Overall time: 00:04:38 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 1709175 / 12967257 = 0.1318 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 @ Tue, 30 Jun 2020 00:09:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:09:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:09:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:09:42: 1000000 INFO @ Tue, 30 Jun 2020 00:09:48: 2000000 INFO @ Tue, 30 Jun 2020 00:09:54: 3000000 INFO @ Tue, 30 Jun 2020 00:10:00: 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 @ Tue, 30 Jun 2020 00:10:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:10:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:10:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:10:06: 5000000 INFO @ Tue, 30 Jun 2020 00:10:12: 1000000 INFO @ Tue, 30 Jun 2020 00:10:13: 6000000 INFO @ Tue, 30 Jun 2020 00:10:20: 2000000 INFO @ Tue, 30 Jun 2020 00:10:20: 7000000 INFO @ Tue, 30 Jun 2020 00:10:27: 3000000 INFO @ Tue, 30 Jun 2020 00:10:27: 8000000 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 @ Tue, 30 Jun 2020 00:10:34: 4000000 INFO @ Tue, 30 Jun 2020 00:10:34: 9000000 INFO @ Tue, 30 Jun 2020 00:10:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:10:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:10:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:10:41: 5000000 INFO @ Tue, 30 Jun 2020 00:10:42: 10000000 INFO @ Tue, 30 Jun 2020 00:10:43: 1000000 INFO @ Tue, 30 Jun 2020 00:10:49: 6000000 INFO @ Tue, 30 Jun 2020 00:10:49: 11000000 INFO @ Tue, 30 Jun 2020 00:10:51: 2000000 INFO @ Tue, 30 Jun 2020 00:10:51: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:10:51: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:10:51: #1 total tags in treatment: 11258082 INFO @ Tue, 30 Jun 2020 00:10:51: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:10:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:10:51: #1 tags after filtering in treatment: 11258082 INFO @ Tue, 30 Jun 2020 00:10:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:10:51: #1 finished! INFO @ Tue, 30 Jun 2020 00:10:51: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:10:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:10:52: #2 number of paired peaks: 63 WARNING @ Tue, 30 Jun 2020 00:10:52: Too few paired peaks (63) 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 @ Tue, 30 Jun 2020 00:10:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.05_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/dm3/SRX5343134/SRX5343134.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:10:56: 7000000 INFO @ Tue, 30 Jun 2020 00:10:58: 3000000 INFO @ Tue, 30 Jun 2020 00:11:03: 8000000 INFO @ Tue, 30 Jun 2020 00:11:05: 4000000 INFO @ Tue, 30 Jun 2020 00:11:10: 9000000 INFO @ Tue, 30 Jun 2020 00:11:12: 5000000 INFO @ Tue, 30 Jun 2020 00:11:18: 10000000 INFO @ Tue, 30 Jun 2020 00:11:19: 6000000 INFO @ Tue, 30 Jun 2020 00:11:25: 11000000 INFO @ Tue, 30 Jun 2020 00:11:27: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:11:27: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:11:27: #1 total tags in treatment: 11258082 INFO @ Tue, 30 Jun 2020 00:11:27: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:11:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:11:27: 7000000 INFO @ Tue, 30 Jun 2020 00:11:27: #1 tags after filtering in treatment: 11258082 INFO @ Tue, 30 Jun 2020 00:11:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:11:27: #1 finished! INFO @ Tue, 30 Jun 2020 00:11:27: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:11:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:11:28: #2 number of paired peaks: 63 WARNING @ Tue, 30 Jun 2020 00:11:28: Too few paired peaks (63) 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 @ Tue, 30 Jun 2020 00:11:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.10_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/dm3/SRX5343134/SRX5343134.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:11:34: 8000000 INFO @ Tue, 30 Jun 2020 00:11:42: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:11:49: 10000000 INFO @ Tue, 30 Jun 2020 00:11:56: 11000000 INFO @ Tue, 30 Jun 2020 00:11:58: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:11:58: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:11:58: #1 total tags in treatment: 11258082 INFO @ Tue, 30 Jun 2020 00:11:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:11:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:11:59: #1 tags after filtering in treatment: 11258082 INFO @ Tue, 30 Jun 2020 00:11:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:11:59: #1 finished! INFO @ Tue, 30 Jun 2020 00:11:59: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:11:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:11:59: #2 number of paired peaks: 63 WARNING @ Tue, 30 Jun 2020 00:11:59: Too few paired peaks (63) 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 @ Tue, 30 Jun 2020 00:11:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.20_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/dm3/SRX5343134/SRX5343134.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343134/SRX5343134.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。