Job ID = 6527680 SRX = SRX202838 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:50:53 prefetch.2.10.7: 1) Downloading 'SRR611199'... 2020-06-29T12:50:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:52:44 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:52:45 prefetch.2.10.7: 'SRR611199' is valid 2020-06-29T12:52:45 prefetch.2.10.7: 1) 'SRR611199' was downloaded successfully Read 10104230 spots for SRR611199/SRR611199.sra Written 10104230 spots for SRR611199/SRR611199.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: 00:04:21 10104230 reads; of these: 10104230 (100.00%) were unpaired; of these: 221812 (2.20%) aligned 0 times 8180536 (80.96%) aligned exactly 1 time 1701882 (16.84%) aligned >1 times 97.80% overall alignment rate Time searching: 00:04:21 Overall time: 00:04:21 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] 445576 / 9882418 = 0.0451 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 22:04:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.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 22:04:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:04:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:04: 1000000 INFO @ Mon, 29 Jun 2020 22:05:11: 2000000 INFO @ Mon, 29 Jun 2020 22:05:17: 3000000 INFO @ Mon, 29 Jun 2020 22:05:23: 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 22:05:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.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 22:05:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:30: 5000000 INFO @ Mon, 29 Jun 2020 22:05:35: 1000000 INFO @ Mon, 29 Jun 2020 22:05:37: 6000000 INFO @ Mon, 29 Jun 2020 22:05:43: 2000000 INFO @ Mon, 29 Jun 2020 22:05:44: 7000000 INFO @ Mon, 29 Jun 2020 22:05:50: 3000000 INFO @ Mon, 29 Jun 2020 22:05:51: 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 @ Mon, 29 Jun 2020 22:05:58: 9000000 INFO @ Mon, 29 Jun 2020 22:05:58: 4000000 INFO @ Mon, 29 Jun 2020 22:05:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.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 22:05:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:06:01: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 22:06:01: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 22:06:01: #1 total tags in treatment: 9436842 INFO @ Mon, 29 Jun 2020 22:06:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:06:01: #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 22:06:01: #1 tags after filtering in treatment: 9436842 INFO @ Mon, 29 Jun 2020 22:06:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:06:01: #1 finished! INFO @ Mon, 29 Jun 2020 22:06:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:06:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:06:01: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:06:01: Too few paired peaks (20) 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 22:06:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.05_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/SRX202838/SRX202838.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:06:05: 5000000 INFO @ Mon, 29 Jun 2020 22:06:06: 1000000 INFO @ Mon, 29 Jun 2020 22:06:13: 6000000 INFO @ Mon, 29 Jun 2020 22:06:14: 2000000 INFO @ Mon, 29 Jun 2020 22:06:20: 7000000 INFO @ Mon, 29 Jun 2020 22:06:21: 3000000 INFO @ Mon, 29 Jun 2020 22:06:27: 8000000 INFO @ Mon, 29 Jun 2020 22:06:29: 4000000 INFO @ Mon, 29 Jun 2020 22:06:35: 9000000 INFO @ Mon, 29 Jun 2020 22:06:36: 5000000 INFO @ Mon, 29 Jun 2020 22:06:38: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 22:06:38: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 22:06:38: #1 total tags in treatment: 9436842 INFO @ Mon, 29 Jun 2020 22:06:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:06:38: #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 22:06:38: #1 tags after filtering in treatment: 9436842 INFO @ Mon, 29 Jun 2020 22:06:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:06:38: #1 finished! INFO @ Mon, 29 Jun 2020 22:06:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:06:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:06:39: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:06:39: Too few paired peaks (20) 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 22:06:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.10_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/SRX202838/SRX202838.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:06:44: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:06:51: 7000000 INFO @ Mon, 29 Jun 2020 22:06:58: 8000000 INFO @ Mon, 29 Jun 2020 22:07:05: 9000000 INFO @ Mon, 29 Jun 2020 22:07:08: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 22:07:08: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 22:07:08: #1 total tags in treatment: 9436842 INFO @ Mon, 29 Jun 2020 22:07:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:07:08: #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 22:07:08: #1 tags after filtering in treatment: 9436842 INFO @ Mon, 29 Jun 2020 22:07:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:07:08: #1 finished! INFO @ Mon, 29 Jun 2020 22:07:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:07:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:07:09: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:07:09: Too few paired peaks (20) 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 22:07:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.20_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/SRX202838/SRX202838.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX202838/SRX202838.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。