Job ID = 6527962 SRX = SRX3511941 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:08:50 prefetch.2.10.7: 1) Downloading 'SRR6418926'... 2020-06-29T14:08:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:12:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:12:21 prefetch.2.10.7: 1) 'SRR6418926' was downloaded successfully 2020-06-29T14:12:21 prefetch.2.10.7: 'SRR6418926' has 0 unresolved dependencies Read 11826653 spots for SRR6418926/SRR6418926.sra Written 11826653 spots for SRR6418926/SRR6418926.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: 00:05:19 11826653 reads; of these: 11826653 (100.00%) were unpaired; of these: 3615605 (30.57%) aligned 0 times 6842190 (57.85%) aligned exactly 1 time 1368858 (11.57%) aligned >1 times 69.43% overall alignment rate Time searching: 00:05:19 Overall time: 00:05:19 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_rmdupse_core] 346488 / 8211048 = 0.0422 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 @ Mon, 29 Jun 2020 23:33:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.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 @ Mon, 29 Jun 2020 23:33:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:33:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:33:12: 1000000 INFO @ Mon, 29 Jun 2020 23:33:19: 2000000 INFO @ Mon, 29 Jun 2020 23:33:25: 3000000 INFO @ Mon, 29 Jun 2020 23:33:32: 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 @ Mon, 29 Jun 2020 23:33:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.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 @ Mon, 29 Jun 2020 23:33:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:33:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:33:39: 5000000 INFO @ Mon, 29 Jun 2020 23:33:42: 1000000 INFO @ Mon, 29 Jun 2020 23:33:46: 6000000 INFO @ Mon, 29 Jun 2020 23:33:50: 2000000 INFO @ Mon, 29 Jun 2020 23:33:53: 7000000 INFO @ Mon, 29 Jun 2020 23:33:57: 3000000 INFO @ Mon, 29 Jun 2020 23:33:59: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:33:59: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:33:59: #1 total tags in treatment: 7864560 INFO @ Mon, 29 Jun 2020 23:33:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:33:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:33:59: #1 tags after filtering in treatment: 7864560 INFO @ Mon, 29 Jun 2020 23:33:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:33:59: #1 finished! INFO @ Mon, 29 Jun 2020 23:33:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:33:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:34:00: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 23:34:00: Too few paired peaks (96) 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 @ Mon, 29 Jun 2020 23:34:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.05_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/SRX3511941/SRX3511941.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Mon, 29 Jun 2020 23:34:04: 4000000 INFO @ Mon, 29 Jun 2020 23:34:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.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 @ Mon, 29 Jun 2020 23:34:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:34:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:34:12: 5000000 INFO @ Mon, 29 Jun 2020 23:34:13: 1000000 INFO @ Mon, 29 Jun 2020 23:34:20: 6000000 INFO @ Mon, 29 Jun 2020 23:34:21: 2000000 INFO @ Mon, 29 Jun 2020 23:34:29: 7000000 INFO @ Mon, 29 Jun 2020 23:34:29: 3000000 INFO @ Mon, 29 Jun 2020 23:34:36: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:34:36: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:34:36: #1 total tags in treatment: 7864560 INFO @ Mon, 29 Jun 2020 23:34:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:34:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:34:36: #1 tags after filtering in treatment: 7864560 INFO @ Mon, 29 Jun 2020 23:34:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:34:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:34:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:34:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:34:36: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 23:34:36: Too few paired peaks (96) 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 @ Mon, 29 Jun 2020 23:34:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.10_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/SRX3511941/SRX3511941.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:34:37: 4000000 INFO @ Mon, 29 Jun 2020 23:34:44: 5000000 INFO @ Mon, 29 Jun 2020 23:34:51: 6000000 INFO @ Mon, 29 Jun 2020 23:34:59: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:35:05: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:35:05: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:35:05: #1 total tags in treatment: 7864560 INFO @ Mon, 29 Jun 2020 23:35:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:35:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:35:05: #1 tags after filtering in treatment: 7864560 INFO @ Mon, 29 Jun 2020 23:35:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:35:05: #1 finished! INFO @ Mon, 29 Jun 2020 23:35:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:35:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:35:06: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 23:35:06: Too few paired peaks (96) 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 @ Mon, 29 Jun 2020 23:35:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.20_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/SRX3511941/SRX3511941.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511941/SRX3511941.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。