Job ID = 14170557 SRX = SRX9372358 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17457088 spots for SRR12907635/SRR12907635.sra Written 17457088 spots for SRR12907635/SRR12907635.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171005 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:15:43 17457088 reads; of these: 17457088 (100.00%) were paired; of these: 9884945 (56.62%) aligned concordantly 0 times 6459405 (37.00%) aligned concordantly exactly 1 time 1112738 (6.37%) aligned concordantly >1 times ---- 9884945 pairs aligned concordantly 0 times; of these: 867224 (8.77%) aligned discordantly 1 time ---- 9017721 pairs aligned 0 times concordantly or discordantly; of these: 18035442 mates make up the pairs; of these: 17205594 (95.40%) aligned 0 times 459008 (2.55%) aligned exactly 1 time 370840 (2.06%) aligned >1 times 50.72% overall alignment rate Time searching: 00:15:44 Overall time: 00:15:44 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_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1210984 / 8427589 = 0.1437 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:36:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.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 @ Sat, 11 Dec 2021 07:36:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:36:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:36:52: 1000000 INFO @ Sat, 11 Dec 2021 07:37:00: 2000000 INFO @ Sat, 11 Dec 2021 07:37:09: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:37:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.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 @ Sat, 11 Dec 2021 07:37:13: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:37:13: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:37:17: 4000000 INFO @ Sat, 11 Dec 2021 07:37:22: 1000000 INFO @ Sat, 11 Dec 2021 07:37:26: 5000000 INFO @ Sat, 11 Dec 2021 07:37:32: 2000000 INFO @ Sat, 11 Dec 2021 07:37:35: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:37:42: 3000000 INFO @ Sat, 11 Dec 2021 07:37:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.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 @ Sat, 11 Dec 2021 07:37:43: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:37:43: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:37:46: 7000000 INFO @ Sat, 11 Dec 2021 07:37:51: 4000000 INFO @ Sat, 11 Dec 2021 07:37:52: 1000000 INFO @ Sat, 11 Dec 2021 07:37:56: 8000000 INFO @ Sat, 11 Dec 2021 07:38:01: 5000000 INFO @ Sat, 11 Dec 2021 07:38:02: 2000000 INFO @ Sat, 11 Dec 2021 07:38:06: 9000000 INFO @ Sat, 11 Dec 2021 07:38:11: 6000000 INFO @ Sat, 11 Dec 2021 07:38:12: 3000000 INFO @ Sat, 11 Dec 2021 07:38:16: 10000000 INFO @ Sat, 11 Dec 2021 07:38:21: 4000000 INFO @ Sat, 11 Dec 2021 07:38:22: 7000000 INFO @ Sat, 11 Dec 2021 07:38:26: 11000000 INFO @ Sat, 11 Dec 2021 07:38:31: 5000000 INFO @ Sat, 11 Dec 2021 07:38:32: 8000000 INFO @ Sat, 11 Dec 2021 07:38:36: 12000000 INFO @ Sat, 11 Dec 2021 07:38:41: 6000000 INFO @ Sat, 11 Dec 2021 07:38:42: 9000000 INFO @ Sat, 11 Dec 2021 07:38:46: 13000000 INFO @ Sat, 11 Dec 2021 07:38:51: 7000000 INFO @ Sat, 11 Dec 2021 07:38:52: 10000000 INFO @ Sat, 11 Dec 2021 07:38:56: 14000000 INFO @ Sat, 11 Dec 2021 07:39:01: 8000000 INFO @ Sat, 11 Dec 2021 07:39:02: 11000000 INFO @ Sat, 11 Dec 2021 07:39:05: 15000000 INFO @ Sat, 11 Dec 2021 07:39:08: #1 tag size is determined as 43 bps INFO @ Sat, 11 Dec 2021 07:39:08: #1 tag size = 43 INFO @ Sat, 11 Dec 2021 07:39:08: #1 total tags in treatment: 6452999 INFO @ Sat, 11 Dec 2021 07:39:08: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:39:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:39:08: #1 tags after filtering in treatment: 6295654 INFO @ Sat, 11 Dec 2021 07:39:08: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 11 Dec 2021 07:39:08: #1 finished! INFO @ Sat, 11 Dec 2021 07:39:08: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:39:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:39:09: #2 number of paired peaks: 58 WARNING @ Sat, 11 Dec 2021 07:39:09: Too few paired peaks (58) 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 @ Sat, 11 Dec 2021 07:39:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.05_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/SRX9372358/SRX9372358.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:39:10: 9000000 INFO @ Sat, 11 Dec 2021 07:39:11: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:39:20: 10000000 INFO @ Sat, 11 Dec 2021 07:39:21: 13000000 INFO @ Sat, 11 Dec 2021 07:39:30: 11000000 INFO @ Sat, 11 Dec 2021 07:39:32: 14000000 INFO @ Sat, 11 Dec 2021 07:39:42: 12000000 INFO @ Sat, 11 Dec 2021 07:39:43: 15000000 INFO @ Sat, 11 Dec 2021 07:39:46: #1 tag size is determined as 43 bps INFO @ Sat, 11 Dec 2021 07:39:46: #1 tag size = 43 INFO @ Sat, 11 Dec 2021 07:39:46: #1 total tags in treatment: 6452999 INFO @ Sat, 11 Dec 2021 07:39:46: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:39:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:39:46: #1 tags after filtering in treatment: 6295654 INFO @ Sat, 11 Dec 2021 07:39:46: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 11 Dec 2021 07:39:46: #1 finished! INFO @ Sat, 11 Dec 2021 07:39:46: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:39:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:39:47: #2 number of paired peaks: 58 WARNING @ Sat, 11 Dec 2021 07:39:47: Too few paired peaks (58) 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 @ Sat, 11 Dec 2021 07:39:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:39:49: 13000000 INFO @ Sat, 11 Dec 2021 07:39:56: 14000000 INFO @ Sat, 11 Dec 2021 07:40:04: 15000000 INFO @ Sat, 11 Dec 2021 07:40:06: #1 tag size is determined as 43 bps INFO @ Sat, 11 Dec 2021 07:40:06: #1 tag size = 43 INFO @ Sat, 11 Dec 2021 07:40:06: #1 total tags in treatment: 6452999 INFO @ Sat, 11 Dec 2021 07:40:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:40:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:40:06: #1 tags after filtering in treatment: 6295654 INFO @ Sat, 11 Dec 2021 07:40:06: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 11 Dec 2021 07:40:06: #1 finished! INFO @ Sat, 11 Dec 2021 07:40:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:40:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:40:06: #2 number of paired peaks: 58 WARNING @ Sat, 11 Dec 2021 07:40:06: Too few paired peaks (58) 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 @ Sat, 11 Dec 2021 07:40:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.20_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/SRX9372358/SRX9372358.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9372358/SRX9372358.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。