Job ID = 6527601 SRX = SRX1299943 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:13:22 prefetch.2.10.7: 1) Downloading 'SRR2546862'... 2020-06-29T13:13:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:23 prefetch.2.10.7: 'SRR2546862' is valid 2020-06-29T13:15:23 prefetch.2.10.7: 1) 'SRR2546862' was downloaded successfully Read 13345208 spots for SRR2546862/SRR2546862.sra Written 13345208 spots for SRR2546862/SRR2546862.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: 00:03:37 13345208 reads; of these: 13345208 (100.00%) were unpaired; of these: 663006 (4.97%) aligned 0 times 10201932 (76.45%) aligned exactly 1 time 2480270 (18.59%) aligned >1 times 95.03% overall alignment rate Time searching: 00:03:37 Overall time: 00:03:37 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] 1572483 / 12682202 = 0.1240 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 22:26:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.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 22:26:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:26:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:27:03: 1000000 INFO @ Mon, 29 Jun 2020 22:27:09: 2000000 INFO @ Mon, 29 Jun 2020 22:27:15: 3000000 INFO @ Mon, 29 Jun 2020 22:27:21: 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 22:27:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.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 22:27:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:27:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:27:27: 5000000 INFO @ Mon, 29 Jun 2020 22:27:33: 1000000 INFO @ Mon, 29 Jun 2020 22:27:34: 6000000 INFO @ Mon, 29 Jun 2020 22:27:40: 2000000 INFO @ Mon, 29 Jun 2020 22:27:42: 7000000 INFO @ Mon, 29 Jun 2020 22:27:47: 3000000 INFO @ Mon, 29 Jun 2020 22:27:48: 8000000 INFO @ Mon, 29 Jun 2020 22:27:53: 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 @ Mon, 29 Jun 2020 22:27:55: 9000000 INFO @ Mon, 29 Jun 2020 22:27:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.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 22:27:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:27:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:28:00: 5000000 INFO @ Mon, 29 Jun 2020 22:28:03: 10000000 INFO @ Mon, 29 Jun 2020 22:28:03: 1000000 INFO @ Mon, 29 Jun 2020 22:28:07: 6000000 INFO @ Mon, 29 Jun 2020 22:28:10: 11000000 INFO @ Mon, 29 Jun 2020 22:28:10: 2000000 INFO @ Mon, 29 Jun 2020 22:28:10: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:28:10: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:28:10: #1 total tags in treatment: 11109719 INFO @ Mon, 29 Jun 2020 22:28:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:28:10: #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 22:28:10: #1 tags after filtering in treatment: 11109719 INFO @ Mon, 29 Jun 2020 22:28:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:28:10: #1 finished! INFO @ Mon, 29 Jun 2020 22:28:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:28:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:28:11: #2 number of paired peaks: 95 WARNING @ Mon, 29 Jun 2020 22:28:11: Too few paired peaks (95) 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 22:28:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.05_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/SRX1299943/SRX1299943.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:28:14: 7000000 INFO @ Mon, 29 Jun 2020 22:28:17: 3000000 INFO @ Mon, 29 Jun 2020 22:28:21: 8000000 INFO @ Mon, 29 Jun 2020 22:28:23: 4000000 INFO @ Mon, 29 Jun 2020 22:28:28: 9000000 INFO @ Mon, 29 Jun 2020 22:28:30: 5000000 INFO @ Mon, 29 Jun 2020 22:28:35: 10000000 INFO @ Mon, 29 Jun 2020 22:28:37: 6000000 INFO @ Mon, 29 Jun 2020 22:28:41: 11000000 INFO @ Mon, 29 Jun 2020 22:28:42: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:28:42: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:28:42: #1 total tags in treatment: 11109719 INFO @ Mon, 29 Jun 2020 22:28:42: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:28:42: #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 22:28:42: #1 tags after filtering in treatment: 11109719 INFO @ Mon, 29 Jun 2020 22:28:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:28:42: #1 finished! INFO @ Mon, 29 Jun 2020 22:28:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:28:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:28:43: #2 number of paired peaks: 95 WARNING @ Mon, 29 Jun 2020 22:28:43: Too few paired peaks (95) 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 22:28:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.10_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/SRX1299943/SRX1299943.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:28:44: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:28:50: 8000000 INFO @ Mon, 29 Jun 2020 22:28:57: 9000000 INFO @ Mon, 29 Jun 2020 22:29:03: 10000000 INFO @ Mon, 29 Jun 2020 22:29:09: 11000000 INFO @ Mon, 29 Jun 2020 22:29:10: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:29:10: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:29:10: #1 total tags in treatment: 11109719 INFO @ Mon, 29 Jun 2020 22:29:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:29:10: #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 22:29:10: #1 tags after filtering in treatment: 11109719 INFO @ Mon, 29 Jun 2020 22:29:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:29:10: #1 finished! INFO @ Mon, 29 Jun 2020 22:29:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:29:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:29:11: #2 number of paired peaks: 95 WARNING @ Mon, 29 Jun 2020 22:29:11: Too few paired peaks (95) 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 22:29:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.20_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/SRX1299943/SRX1299943.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1299943/SRX1299943.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。