Job ID = 6528077 SRX = SRX4068067 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:47:28 prefetch.2.10.7: 1) Downloading 'SRR7148578'... 2020-06-29T14:47:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:54:20 prefetch.2.10.7: HTTPS download failed 2020-06-29T14:54:20 prefetch.2.10.7: 1) failed to download SRR7148578 2020-06-29T14:54:34 prefetch.2.10.7: 1) Downloading 'SRR7148578'... 2020-06-29T14:54:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:54:34 prefetch.2.10.7: Continue download of 'SRR7148578' from 472118708 2020-06-29T14:54:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:54:44 prefetch.2.10.7: 'SRR7148578' is valid 2020-06-29T14:54:44 prefetch.2.10.7: 1) 'SRR7148578' was downloaded successfully Read 13514341 spots for SRR7148578/SRR7148578.sra Written 13514341 spots for SRR7148578/SRR7148578.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: 00:04:04 13514341 reads; of these: 13514341 (100.00%) were unpaired; of these: 517604 (3.83%) aligned 0 times 10811931 (80.00%) aligned exactly 1 time 2184806 (16.17%) aligned >1 times 96.17% overall alignment rate Time searching: 00:04:04 Overall time: 00:04:04 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] 1073740 / 12996737 = 0.0826 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 00:08:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.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 00:08:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:08:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:08:50: 1000000 INFO @ Tue, 30 Jun 2020 00:08:57: 2000000 INFO @ Tue, 30 Jun 2020 00:09:05: 3000000 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 00:09:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.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 00:09:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:09:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:09:13: 4000000 INFO @ Tue, 30 Jun 2020 00:09:21: 1000000 INFO @ Tue, 30 Jun 2020 00:09:21: 5000000 INFO @ Tue, 30 Jun 2020 00:09:29: 6000000 INFO @ Tue, 30 Jun 2020 00:09:30: 2000000 INFO @ Tue, 30 Jun 2020 00:09:37: 7000000 INFO @ Tue, 30 Jun 2020 00:09:38: 3000000 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 00:09:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.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 00:09:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:09:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:09:46: 8000000 INFO @ Tue, 30 Jun 2020 00:09:47: 4000000 INFO @ Tue, 30 Jun 2020 00:09:51: 1000000 INFO @ Tue, 30 Jun 2020 00:09:54: 9000000 INFO @ Tue, 30 Jun 2020 00:09:54: 5000000 INFO @ Tue, 30 Jun 2020 00:09:59: 2000000 INFO @ Tue, 30 Jun 2020 00:10:02: 6000000 INFO @ Tue, 30 Jun 2020 00:10:02: 10000000 INFO @ Tue, 30 Jun 2020 00:10:08: 3000000 INFO @ Tue, 30 Jun 2020 00:10:09: 7000000 INFO @ Tue, 30 Jun 2020 00:10:11: 11000000 INFO @ Tue, 30 Jun 2020 00:10:16: 4000000 INFO @ Tue, 30 Jun 2020 00:10:16: 8000000 INFO @ Tue, 30 Jun 2020 00:10:19: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:10:19: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:10:19: #1 total tags in treatment: 11922997 INFO @ Tue, 30 Jun 2020 00:10:19: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:10:19: #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 00:10:19: #1 tags after filtering in treatment: 11922997 INFO @ Tue, 30 Jun 2020 00:10:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:10:19: #1 finished! INFO @ Tue, 30 Jun 2020 00:10:19: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:10:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:10:20: #2 number of paired peaks: 62 WARNING @ Tue, 30 Jun 2020 00:10:20: Too few paired peaks (62) 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 00:10:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.05_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/SRX4068067/SRX4068067.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:10:23: 9000000 INFO @ Tue, 30 Jun 2020 00:10:24: 5000000 INFO @ Tue, 30 Jun 2020 00:10:31: 10000000 INFO @ Tue, 30 Jun 2020 00:10:32: 6000000 INFO @ Tue, 30 Jun 2020 00:10:38: 11000000 INFO @ Tue, 30 Jun 2020 00:10:39: 7000000 INFO @ Tue, 30 Jun 2020 00:10:44: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:10:44: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:10:44: #1 total tags in treatment: 11922997 INFO @ Tue, 30 Jun 2020 00:10:44: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:10:44: #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 00:10:44: #1 tags after filtering in treatment: 11922997 INFO @ Tue, 30 Jun 2020 00:10:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:10:44: #1 finished! INFO @ Tue, 30 Jun 2020 00:10:44: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:10:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:10:45: #2 number of paired peaks: 62 WARNING @ Tue, 30 Jun 2020 00:10:45: Too few paired peaks (62) 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 00:10:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.10_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/dm3/SRX4068067/SRX4068067.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:10:47: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:10:54: 9000000 INFO @ Tue, 30 Jun 2020 00:11:00: 10000000 INFO @ Tue, 30 Jun 2020 00:11:06: 11000000 INFO @ Tue, 30 Jun 2020 00:11:12: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:11:12: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:11:12: #1 total tags in treatment: 11922997 INFO @ Tue, 30 Jun 2020 00:11:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:11:12: #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 00:11:12: #1 tags after filtering in treatment: 11922997 INFO @ Tue, 30 Jun 2020 00:11:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:11:12: #1 finished! INFO @ Tue, 30 Jun 2020 00:11:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:11:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:11:13: #2 number of paired peaks: 62 WARNING @ Tue, 30 Jun 2020 00:11:13: Too few paired peaks (62) 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 00:11:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.20_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/SRX4068067/SRX4068067.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068067/SRX4068067.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。