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@@ -13,33 +13,37 @@
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},
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{
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"cell_type": "code",
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- "execution_count": 4,
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+ "execution_count": 1,
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"metadata": {},
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- "outputs": [
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- {
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- "ename": "IndexError",
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- "evalue": "too many indices for array: array is 1-dimensional, but 2 were indexed",
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- "output_type": "error",
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- "traceback": [
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- "\u001b[1;31m---------------------------------------------------------------------------\u001b[0m",
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- "\u001b[1;31mIndexError\u001b[0m Traceback (most recent call last)",
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- "\u001b[1;32m<ipython-input-4-5f15cb32f5c4>\u001b[0m in \u001b[0;36m<module>\u001b[1;34m\u001b[0m\n\u001b[1;32m----> 1\u001b[1;33m \u001b[0mh5name\u001b[0m \u001b[1;33m=\u001b[0m \u001b[0mpack\u001b[0m\u001b[1;33m(\u001b[0m\u001b[1;34m'sessions\\\\47_aSIT_2021-07-31_19-05-54'\u001b[0m\u001b[1;33m)\u001b[0m\u001b[1;33m\u001b[0m\u001b[1;33m\u001b[0m\u001b[0m\n\u001b[0m",
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- "\u001b[1;32m<ipython-input-3-1b999426b089>\u001b[0m in \u001b[0;36mpack\u001b[1;34m(session_path)\u001b[0m\n\u001b[0;32m 73\u001b[0m \u001b[1;31m# save trials\u001b[0m\u001b[1;33m\u001b[0m\u001b[1;33m\u001b[0m\u001b[1;33m\u001b[0m\u001b[0m\n\u001b[0;32m 74\u001b[0m \u001b[0mevents\u001b[0m \u001b[1;33m=\u001b[0m \u001b[0mnp\u001b[0m\u001b[1;33m.\u001b[0m\u001b[0marray\u001b[0m\u001b[1;33m(\u001b[0m\u001b[0mf\u001b[0m\u001b[1;33m[\u001b[0m\u001b[1;34m'raw'\u001b[0m\u001b[1;33m]\u001b[0m\u001b[1;33m[\u001b[0m\u001b[1;34m'events'\u001b[0m\u001b[1;33m]\u001b[0m\u001b[1;33m)\u001b[0m\u001b[1;33m\u001b[0m\u001b[1;33m\u001b[0m\u001b[0m\n\u001b[1;32m---> 75\u001b[1;33m \u001b[0mevents\u001b[0m\u001b[1;33m[\u001b[0m\u001b[1;33m:\u001b[0m\u001b[1;33m,\u001b[0m \u001b[1;36m0\u001b[0m\u001b[1;33m]\u001b[0m \u001b[1;33m=\u001b[0m \u001b[0mevents\u001b[0m\u001b[1;33m[\u001b[0m\u001b[1;33m:\u001b[0m\u001b[1;33m,\u001b[0m \u001b[1;36m0\u001b[0m\u001b[1;33m]\u001b[0m \u001b[1;33m-\u001b[0m \u001b[0ms_start\u001b[0m\u001b[1;33m\u001b[0m\u001b[1;33m\u001b[0m\u001b[0m\n\u001b[0m\u001b[0;32m 76\u001b[0m \u001b[1;33m\u001b[0m\u001b[0m\n\u001b[0;32m 77\u001b[0m \u001b[0mt_count\u001b[0m \u001b[1;33m=\u001b[0m \u001b[0mlen\u001b[0m\u001b[1;33m(\u001b[0m\u001b[0mnp\u001b[0m\u001b[1;33m.\u001b[0m\u001b[0munique\u001b[0m\u001b[1;33m(\u001b[0m\u001b[0mevents\u001b[0m\u001b[1;33m[\u001b[0m\u001b[0mevents\u001b[0m\u001b[1;33m[\u001b[0m\u001b[1;33m:\u001b[0m\u001b[1;33m,\u001b[0m \u001b[1;36m5\u001b[0m\u001b[1;33m]\u001b[0m \u001b[1;33m!=\u001b[0m \u001b[1;36m0\u001b[0m\u001b[1;33m]\u001b[0m\u001b[1;33m[\u001b[0m\u001b[1;33m:\u001b[0m\u001b[1;33m,\u001b[0m \u001b[1;36m4\u001b[0m\u001b[1;33m]\u001b[0m\u001b[1;33m)\u001b[0m\u001b[1;33m)\u001b[0m\u001b[1;33m\u001b[0m\u001b[1;33m\u001b[0m\u001b[0m\n",
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- "\u001b[1;31mIndexError\u001b[0m: too many indices for array: array is 1-dimensional, but 2 were indexed"
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- ]
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- }
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- ],
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+ "outputs": [],
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"source": [
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- "h5name = pack('sessions\\\\47_aSIT_2021-07-31_19-05-54')"
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+ "# Pack a particular session\n",
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+ "#h5name = pack('sessions\\\\47_aSIT_2021-07-31_19-05-54')"
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]
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},
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{
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"cell_type": "code",
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- "execution_count": 3,
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+ "execution_count": 2,
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"metadata": {},
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"outputs": [],
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"source": [
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"def pack(session_path):\n",
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+ " \"\"\"\n",
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+ " Pack independent tracking datasets into a single HDF5 file.\n",
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+ " \n",
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+ " File has the following structure:\n",
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+ " \n",
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+ " /raw\n",
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+ " /positions - raw positions from .csv\n",
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+ " /events - raw events from .csv\n",
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+ " /sounds - raw sounds from .csv\n",
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+ " /processed\n",
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+ " /timeline - matrix of [time, x, y, speed] sampled at 50Hz, data is smoothed with gaussian kernel\n",
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+ " /trial_idxs - matrix of trial indices to timeline\n",
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+ " /sound_idxs - matrix of sound indices to timeline\n",
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+ " \n",
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+ " each dataset has an attribute 'headers' with the description of columns.\n",
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+ " \"\"\"\n",
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" params_file = [x for x in os.listdir(session_path) if x.endswith('.json')][0]\n",
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"\n",
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" with open(os.path.join(session_path, params_file)) as json_file:\n",
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@@ -176,7 +180,7 @@
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"name": "python",
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"nbconvert_exporter": "python",
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"pygments_lexer": "ipython3",
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- "version": "3.8.8"
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+ "version": "3.8.10"
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}
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},
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"nbformat": 4,
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asobolev