2021-06-10 04:25:18 [INFO] Starting.
2021-06-10 04:25:18 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-06-10 04:25:18 [INFO] Creating new aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-06-10 04:25:18 [INFO] Using chromosome sizes at /grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes
2021-06-10 04:25:18 [INFO] Using only main chromosomes: chr1, chr2, chr3, chr4, chr5, chr6, chr7, chrX, chr8, chr9, chr11, chr10, chr12, chr13, chr14, chr15, chr16, chr17, chr18, chr20, chr19, chrY, chr22, chr21, chrM
2021-06-10 04:25:19 [INFO] Building aggregate.
2021-06-10 04:25:19 [INFO] Writing every 10 Runs.
2021-06-10 04:25:19 [INFO] Processing SRX8330503. (1/2)
2021-06-10 04:25:19 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-06-10 04:25:30 [INFO] Processing SRX8330504. (2/2)
2021-06-10 04:25:30 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-06-10 04:25:43 [INFO] Writing to disk...
2021-06-10 04:25:46 [INFO] Finished.
2021-08-02 17:08:55 [INFO] Starting.
2021-08-02 17:08:56 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-02 17:08:56 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-02 17:08:56 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-02 17:08:56 [INFO] Building aggregate for 1bp_raw network.
2021-08-02 17:08:56 [INFO] Writing every 10 Runs.
2021-08-02 17:08:56 [INFO] Processing SRX8330503. (1/2)
2021-08-02 17:08:56 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-02 17:48:32 [INFO] Processing SRX8330504. (2/2)
2021-08-02 17:48:32 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-02 17:57:54 [ERROR] Adding SRR11777636:chr4_vs_chr5 to in memory aggregate failed. Error message:
Traceback (most recent call last):
  File "/grid/gillis/data/nfox/hi_c_data_processing/software/aggregate.py", line 428, in add_dataset
    aggregate_data[c] = aggregate_data[c] + net
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/base.py", line 415, in __add__
    return self._add_sparse(other)
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 359, in _add_sparse
    return self._binopt(other, '_plus_')
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 1226, in _binopt
    indptr = np.empty(self.indptr.shape, dtype=idx_dtype)
MemoryError: Unable to allocate 726. MiB for an array with shape (190214556,) and data type int32

2021-08-04 22:13:59 [INFO] Starting.
2021-08-04 22:13:59 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-04 22:13:59 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-04 22:13:59 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-04 22:14:00 [INFO] Building aggregate for 1bp_raw network.
2021-08-04 22:14:00 [INFO] Writing every 10 Runs.
2021-08-04 22:14:00 [INFO] Processing SRX8330503. (1/2)
2021-08-04 22:14:00 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-04 22:17:11 [INFO] Processing SRX8330504. (2/2)
2021-08-04 22:17:11 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-04 22:23:51 [INFO] Writing to disk...
2021-08-04 22:24:41 [INFO] Finished.
2021-08-12 14:34:26 [INFO] Starting.
2021-08-12 14:34:26 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-12 14:34:26 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-12 14:34:26 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 14:34:27 [INFO] Building aggregate for 40kbp_raw network.
2021-08-12 14:34:27 [INFO] Writing every 10 Runs.
2021-08-12 14:34:27 [INFO] Processing SRX8330503. (1/2)
2021-08-12 14:34:27 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-12 14:34:42 [INFO] Processing SRX8330504. (2/2)
2021-08-12 14:34:42 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-12 14:35:05 [INFO] Writing to disk...
2021-08-12 14:35:08 [INFO] Finished.
2021-08-12 15:13:04 [INFO] Starting.
2021-08-12 15:13:04 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-12 15:13:04 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-12 15:13:04 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:13:05 [INFO] Building aggregate for 25kbp_raw network.
2021-08-12 15:13:05 [INFO] Writing every 10 Runs.
2021-08-12 15:13:05 [INFO] Processing SRX8330503. (1/2)
2021-08-12 15:13:05 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-12 15:13:19 [INFO] Processing SRX8330504. (2/2)
2021-08-12 15:13:19 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-12 15:13:42 [INFO] Writing to disk...
2021-08-12 15:13:45 [INFO] Finished.
2021-08-12 15:47:48 [INFO] Starting.
2021-08-12 15:47:48 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-12 15:47:48 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-12 15:47:48 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:47:49 [INFO] Building aggregate for 5kbp_raw network.
2021-08-12 15:47:49 [INFO] Writing every 10 Runs.
2021-08-12 15:47:49 [INFO] Processing SRX8330503. (1/2)
2021-08-12 15:47:49 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-12 15:48:05 [INFO] Processing SRX8330504. (2/2)
2021-08-12 15:48:05 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-12 15:48:28 [INFO] Writing to disk...
2021-08-12 15:48:31 [INFO] Finished.
2021-08-12 16:36:43 [INFO] Starting.
2021-08-12 16:36:43 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-12 16:36:43 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-12 16:36:43 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 16:36:44 [INFO] Building aggregate for 1kbp_raw network.
2021-08-12 16:36:44 [INFO] Writing every 10 Runs.
2021-08-12 16:36:44 [INFO] Processing SRX8330503. (1/2)
2021-08-12 16:36:44 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-12 16:37:01 [INFO] Processing SRX8330504. (2/2)
2021-08-12 16:37:01 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-12 16:37:27 [INFO] Writing to disk...
2021-08-12 16:37:32 [INFO] Finished.
2021-08-20 18:04:52 [INFO] Starting.
2021-08-20 18:04:52 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-20 18:04:52 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-20 18:04:52 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-20 18:04:53 [INFO] Building aggregate for 100kbp_raw network.
2021-08-20 18:04:53 [INFO] Writing every 10 Runs.
2021-08-20 18:04:53 [INFO] Processing SRX8330503. (1/2)
2021-08-20 18:04:53 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-20 18:05:10 [INFO] Processing SRX8330504. (2/2)
2021-08-20 18:05:10 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-20 18:05:37 [INFO] Writing to disk...
2021-08-20 18:05:39 [INFO] Finished.
2021-08-23 11:31:35 [INFO] Starting.
2021-08-23 11:31:35 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-23 11:31:35 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-23 11:31:35 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 11:31:36 [INFO] Building aggregate for 250kbp_raw network.
2021-08-23 11:31:36 [INFO] Writing every 10 Runs.
2021-08-23 11:31:36 [INFO] Processing SRX8330503. (1/2)
2021-08-23 11:31:36 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-23 11:31:44 [INFO] Processing SRX8330504. (2/2)
2021-08-23 11:31:44 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-23 11:31:55 [INFO] Writing to disk...
2021-08-23 11:31:56 [INFO] Finished.
2021-08-23 13:17:29 [INFO] Starting.
2021-08-23 13:17:29 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/
2021-08-23 13:17:29 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP163908/aggregate.hdf5
2021-08-23 13:17:29 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 13:17:30 [INFO] Building aggregate for 500kbp_raw network.
2021-08-23 13:17:30 [INFO] Writing every 10 Runs.
2021-08-23 13:17:30 [INFO] Processing SRX8330503. (1/2)
2021-08-23 13:17:30 [INFO] Processing SRX8330503-SRR11777637. (1/2)
2021-08-23 13:17:36 [INFO] Processing SRX8330504. (2/2)
2021-08-23 13:17:36 [INFO] Processing SRX8330504-SRR11777636. (2/2)
2021-08-23 13:17:42 [INFO] Writing to disk...
2021-08-23 13:17:42 [INFO] Finished.