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Metafile Tags

  • Typical right-hand-side values are shown for each tag illustrating whether its data are integers, floating-point values or text strings.

  • Inapplicable values may be blank, like so: niXAChans1=

  • Inapplicable tags may be absent.

Subsections:

Common to All Files

appVersion=20201024

fileCreateTime=2020-08-29T00:27:54

These are the local date and time on the recording machine.

fileName=C:/SGL_DATA/qqq1_g0_t0.nidq.bin

This is the original path to the binary file paired with this metadata file.

fileSHA1=B209BBB956A9F6371625C118D651DBE9AED4051D

This is a checksum calculated for the binary data. Use menu item Tools::Verify SHA1 to detect if the binary data have been altered since the file was first recorded.

fileSizeBytes=10144818

This should match what you see when you right-click on the binary file in the 'Windows File Explorer' and select 'Properties'. This is the 'Size' value, not the 'Size on disk' value.

fileTimeSecs=1.0

This is the span of the file data in seconds and is calculated as:

    fileTimeSecs = fileSizeBytes / xxSampleRate / nSavedChans / 2,
    where, xxSampleRate is the niSampleRate or imSampleRate
    recorded in the same metafile.

firstSample=779283

All acquired samples are assigned an index number; the first acquired during the run is sample 0. This value is the index number of the first sample recorded in this file.

gateMode=0

Possible values are {0=Immediate, 1=TCP}.

nDataDirs=1

The number of data directories holding the data from this run. If greater than one, then the files for an imec probe with logical index iProbe are written into the data directory whose index is: iProbe modulo nDataDirs.

nSavedChans=257

The number of channels being saved to disk.

rmt_USERTYPE=USERDEFINED

When SpikeGLX is set as a Gate/Trigger server it can receive remote commands to start and stop gate and trigger intervals. It can also receive remote commands to insert custom metadata into saved files. Such tags are automatically prepended with 'rmt_' to distinguish them from built-in tags.

snsSaveChanSubset=2,4,8,12:150
snsSaveChanSubset=all

Two examples are shown above for snsSaveChanSubset. If any channels are NOT being saved the value is a printer-like list of channels that ARE saved. If ALL are saved, the value is 'all'.

syncSourceIdx=0

Type of pulser source {0=None, 1=External, 2=NI, 3+=IM}.

syncSourcePeriod=1.0

Measured period of the shared pulse train in seconds.

trigMode=1

Possible values are {0=Immediate, 1=Timed, 2=TTL, 3=Spike, 4=TCP}.

typeImEnabled=1

Count of imec probes enabled for this run.

typeNiEnabled=1

Whether nidq stream was enabled for this run {1=yes, 0=no}.

typeObEnabled=1

Count of OneBox analog/digital streams enabled for this run.

typeThis=nidq

Which stream type is described in this file {nidq, imec, obx}.

userNotes=Line1\nLine2...

Blank lines in your text are each replaced with 'backslash-n'. The userNotes tag is thereby a single line in metafiles.

~snsShankMap=(1,2,96)(0:0:0:1)(0:1:0:1)(0:0:1:1)(0:1:1:1)(0:0:2:1)(0:1:2:1)(0:0:3:1)(0:1:3:1)(0:0:4:1)(0:1:4:1)(0:0:5:1)(0:1:5:1)(0:0:6:1)(0:1:6:1)(0:0:7:1)(0:1:7:1)(0:0:8:1)(0:1:8:1)(0:0:9:1)(0:1:9:1)(0:0:10:1)(0:1:10:1)(0:0:11:1)(0:1:11:1)(0:0:12:1)(0:1:12:1)(0:0:13:1)(0:1:13:1)(0:0:14:1)(0:1:14:1)(0:0:15:1)(0:1:15:1)(0:0:16:1)(0:1:16:1)(0:0:17:1)(0:1:17:1)(0:0:18:1)(0:1:18:1)(0:0:19:1)(0:1:19:1)(0:0:20:1)(0:1:20:1)(0:0:21:1)(0:1:21:1)(0:0:22:1)(0:1:22:1)(0:0:23:1)(0:1:23:1)(0:0:24:1)(0:1:24:1)(0:0:25:1)(0:1:25:1)(0:0:26:1)(0:1:26:1)(0:0:27:1)(0:1:27:1)(0:0:28:1)(0:1:28:1)(0:0:29:1)(0:1:29:1)(0:0:30:1)(0:1:30:1)(0:0:31:1)(0:1:31:1)(0:0:32:1)(0:1:32:1)(0:0:33:1)(0:1:33:1)(0:0:34:1)(0:1:34:1)(0:0:35:1)(0:1:35:1)(0:0:36:1)(0:1:36:1)(0:0:37:1)(0:1:37:1)(0:0:38:1)(0:1:38:1)(0:0:39:1)(0:1:39:1)(0:0:40:1)(0:1:40:1)(0:0:41:1)(0:1:41:1)(0:0:42:1)(0:1:42:1)(0:0:43:1)(0:1:43:1)(0:0:44:1)(0:1:44:1)(0:0:45:1)(0:1:45:1)(0:0:46:1)(0:1:46:1)(0:0:47:1)(0:1:47:1)(0:0:48:1)(0:1:48:1)(0:0:49:1)(0:1:49:1)(0:0:50:1)(0:1:50:1)(0:0:51:1)(0:1:51:1)(0:0:52:1)(0:1:52:1)(0:0:53:1)(0:1:53:1)(0:0:54:1)(0:1:54:1)(0:0:55:1)(0:1:55:1)(0:0:56:1)(0:1:56:1)(0:0:57:1)(0:1:57:1)(0:0:58:1)(0:1:58:1)(0:0:59:1)(0:1:59:1)(0:0:60:1)(0:1:60:1)(0:0:61:1)(0:1:61:1)(0:0:62:1)(0:1:62:1)(0:0:63:1)(0:1:63:1)(0:0:64:1)(0:1:64:1)(0:0:65:1)(0:1:65:1)(0:0:66:1)(0:1:66:1)(0:0:67:1)(0:1:67:1)(0:0:68:1)(0:1:68:1)(0:0:69:1)(0:1:69:1)(0:0:70:1)(0:1:70:1)(0:0:71:1)(0:1:71:1)(0:0:72:1)(0:1:72:1)(0:0:73:1)(0:1:73:1)(0:0:74:1)(0:1:74:1)(0:0:75:1)(0:1:75:1)(0:0:76:1)(0:1:76:1)(0:0:77:1)(0:1:77:1)(0:0:78:1)(0:1:78:1)(0:0:79:1)(0:1:79:1)(0:0:80:1)(0:1:80:1)(0:0:81:1)(0:1:81:1)(0:0:82:1)(0:1:82:1)(0:0:83:1)(0:1:83:1)(0:0:84:1)(0:1:84:1)(0:0:85:1)(0:1:85:1)(0:0:86:1)(0:1:86:1)(0:0:87:1)(0:1:87:1)(0:0:88:1)(0:1:88:1)(0:0:89:1)(0:1:89:1)(0:0:90:1)(0:1:90:1)(0:0:91:1)(0:1:91:1)(0:0:92:1)(0:1:92:1)(0:0:93:1)(0:1:93:1)(0:0:94:1)(0:1:94:1)(0:0:95:1)(0:1:95:1)

The ShankMap describes how electrodes are arranged on the probe. The first () entry is a header. Here, (1,2,96) indicates the probe has up to 1 shank with up to 2 columns and 96 rows. Note that these are maximum values that define a grid, but not all column and row combinations need be occupied. Each following electrode entry has four values (s:c:r:u):

  1. zero-based shank # (with tips pointing down, shank-0 is left-most),

  2. zero-based col #,

  3. zero-based row #,

  4. 0/1 "used," or, (u-flag), indicating if the electrode should be drawn in the FileViewer and ShankViewer windows, and if it should be included in spatial average <S> calculations.

Note: There are electrode entries only for saved channels.

Note: As of SpikeGLX 20230202, ~snsShankMap became obsolete in imec probe metadata. Rather, probe layouts are described more accurately by the newer ~snsGeomMap data structure.

If Using Timed Trigger

trgTimIsHInf=false

Is the duration of the high cycle infinite (latched high)? If not trgTimTH sets the duration.

trgTimIsNInf=false

Is the count of high cycles infinite? If not, trgTimNH sets the count.

Note that infinite cycle counts or durations are terminated when either the current gate goes low or the run is stopped manually.

trgTimNH=1

This is the number of high-low cycles per gate window, unless overridden by trgTimIsNInf.

trgTimTH=1.0

This is the number of seconds of data to write, unless overridden by trgTimIsHInf.

trgTimTL=1.0

This is the number of seconds to wait between write-phases.

trgTimTL0=10.0

This is the number of seconds to wait from the start of a gate window, until starting the first high-phase (write-phase).

If Using TTL Trigger

trgTTLAIChan=192

trgTTLBit=0

trgTTLInarow=5

This is the count in consecutive samples that must also be high to confirm that a rising edge is real rather than noise. This is sometimes referred to as an "anti-bounce" feature.

trgTTLIsAnalog=true

If true, trgTTLAIChan specifies which analog channel in the stream will be tested for rising edges. If false, trgTTLBit specifies which bit of the 16-bit digital data words will be tested. The digital data words are the last words in each timepoint. The bits within are arranged like this:

[analog0][analog1]...[analogN][bit15..bit0][bit31..bit16]...[digitalN].

trgTTLIsNInf=true

Is the count of high cycles infinite? If not, trgTTLNH sets the count.

Note that infinite cycle counts or durations are terminated when either the current gate goes low or the run is stopped manually.

trgTTLMarginS=1.0

This is the number of seconds to add both before and after the peri-event interval to provide expanded context.

trgTTLMode=0

Once a rising edge is detected, the mode controls how the length of the high-phase (file-writing phase) is determined.

Possible values: {0=Latch high, 1=Timed high, 2=Follow TTL}.

trgTTLNH=10

This is the count of writing cycles to execute per gate window, unless overridden by trgTTLIsNInf.

trgTTLRefractS=0.5

This is the minimum number of seconds to wait since the last rising-edge until the rising-edge detector may be re-armed.

trgTTLStream=nidq

trgTTLTH=0.5

This is the programmed high duration if trgTTLMode=1.

trgTTLThresh=2.0

This is the voltage threshold used for testing analog-type channels.

If Using Spike Trigger

trgSpikeAIChan=4

trgSpikeInarow=3

This is the count in consecutive samples that must also be low to confirm that a falling edge is a real spike rather than noise.

trgSpikeIsNInf=false

Is the count of spikes to detect infinite? If not, trgSpikeNS sets the count.

Note that infinite spike counts are terminated when either the current gate goes low or the run is stopped manually.

trgSpikeNS=10

Maximum number of spikes to detect (files to write) per gate window.

trgSpikePeriEvtS=1.0

This is the number of seconds to add both before and after the peri-event interval to provide expanded context.

trgSpikeRefractS=0.5

This is the minimum number of seconds to wait since the last spike until the falling-edge detector may be re-armed.

trgSpikeStream=nidq

trgSpikeThresh=-100e-6

This trigger defines a spike as a negative-going threshold crossing.

Nidq

acqMnMaXaDw=192,64,0,1

This is the count of channels, of each type, in each timepoint, at acquisition time.

niAiRangeMax=2.5

Convert from 16-bit analog values (i) to voltages (V) as follows:

V = i * Vmax / Imax / gain.

For nidq data:

  • Imax = 32768
  • Vmax = niAiRangeMax
  • gain = niMNGain or niMAGain, accordingly.
niAiRangeMin=-2.5

niAiTermination=Default

niClockSource=Whisper : 25000

Name of the device generating the sample clock and its programmed (set) rate.

niClockLine1=PFI2

niDev1=Dev1

niDev1ProductName=FakeDAQ

niMAChans1=6:7

niMAGain=1.0

niMaxInt=32768

Maximum amplitude integer encoded in the 16-bit analog channels. Really, in this example [-32768..32767]. The reason for this apparent asymmetry is that, by convention, zero is grouped with the positive values. The stream is 16-bit so can encode 2^16 = 65536 values. There are 32768 negative values: [-32768..-1] and 32768 positives: [0..32767]. This convention (zero is a positive number) applies in all signed computer arithmetic.

niMNChans1=0:5

niMNGain=200.0

niMuxFactor=32

niSampRate=25000

This is the best estimator of the sample rate. It will be the calibrated rate if calibration was done.

niStartEnable=true

niStartLine=Dev1/port0/line0

niXAChans1=

niXDBytes1=1

This is the number of bytes needed to hold the lines specified by niXDChans1. The lines acquired from the second device (if used) start at offset: 8 * niXDBytes1.

niXDChans1=1

This is a printer-like list of NI-DAQ line indices. For example, if your NI device was named 'Fred' and if niXDChans1=2:3, we would acquire from lines {Fred/line2, Fred/line3}.

snsMnMaXaDw=192,64,0,1

This is the count of channels, of each type, in each timepoint, as stored in the binary file.

syncNiChan=0

The bit or channel number (in the acquired stream).

syncNiChanType=0

Values are {0=Digital bit, 1=Analog channel}.

syncNiThresh=3.0

The crossing threshold (V) for an analog channel.

~snsChanMap=(6,2,32,0,1)(MN0C0;0:0)(MN0C1;1:1)(MN0C2;2:2)(MN0C3;3:3)(MN0C4;4:4)(MN0C5;5:5)(MN0C6;6:6)(MN0C7;7:7)(MN0C8;8:8)(MN0C9;9:9)(MN0C10;10:10)(MN0C11;11:11)(MN0C12;12:12)(MN0C13;13:13)(MN0C14;14:14)(MN0C15;15:15)(MN0C16;16:16)(MN0C17;17:17)(MN0C18;18:18)(MN0C19;19:19)(MN0C20;20:20)(MN0C21;21:21)(MN0C22;22:22)(MN0C23;23:23)(MN0C24;24:24)(MN0C25;25:25)(MN0C26;26:26)(MN0C27;27:27)(MN0C28;28:28)(MN0C29;29:29)(MN0C30;30:30)(MN0C31;31:31)(MN1C0;32:32)(MN1C1;33:33)(MN1C2;34:34)(MN1C3;35:35)(MN1C4;36:36)(MN1C5;37:37)(MN1C6;38:38)(MN1C7;39:39)(MN1C8;40:40)(MN1C9;41:41)(MN1C10;42:42)(MN1C11;43:43)(MN1C12;44:44)(MN1C13;45:45)(MN1C14;46:46)(MN1C15;47:47)(MN1C16;48:48)(MN1C17;49:49)(MN1C18;50:50)(MN1C19;51:51)(MN1C20;52:52)(MN1C21;53:53)(MN1C22;54:54)(MN1C23;55:55)(MN1C24;56:56)(MN1C25;57:57)(MN1C26;58:58)(MN1C27;59:59)(MN1C28;60:60)(MN1C29;61:61)(MN1C30;62:62)(MN1C31;63:63)(MN2C0;64:64)(MN2C1;65:65)(MN2C2;66:66)(MN2C3;67:67)(MN2C4;68:68)(MN2C5;69:69)(MN2C6;70:70)(MN2C7;71:71)(MN2C8;72:72)(MN2C9;73:73)(MN2C10;74:74)(MN2C11;75:75)(MN2C12;76:76)(MN2C13;77:77)(MN2C14;78:78)(MN2C15;79:79)(MN2C16;80:80)(MN2C17;81:81)(MN2C18;82:82)(MN2C19;83:83)(MN2C20;84:84)(MN2C21;85:85)(MN2C22;86:86)(MN2C23;87:87)(MN2C24;88:88)(MN2C25;89:89)(MN2C26;90:90)(MN2C27;91:91)(MN2C28;92:92)(MN2C29;93:93)(MN2C30;94:94)(MN2C31;95:95)(MN3C0;96:96)(MN3C1;97:97)(MN3C2;98:98)(MN3C3;99:99)(MN3C4;100:100)(MN3C5;101:101)(MN3C6;102:102)(MN3C7;103:103)(MN3C8;104:104)(MN3C9;105:105)(MN3C10;106:106)(MN3C11;107:107)(MN3C12;108:108)(MN3C13;109:109)(MN3C14;110:110)(MN3C15;111:111)(MN3C16;112:112)(MN3C17;113:113)(MN3C18;114:114)(MN3C19;115:115)(MN3C20;116:116)(MN3C21;117:117)(MN3C22;118:118)(MN3C23;119:119)(MN3C24;120:120)(MN3C25;121:121)(MN3C26;122:122)(MN3C27;123:123)(MN3C28;124:124)(MN3C29;125:125)(MN3C30;126:126)(MN3C31;127:127)(MN4C0;128:128)(MN4C1;129:129)(MN4C2;130:130)(MN4C3;131:131)(MN4C4;132:132)(MN4C5;133:133)(MN4C6;134:134)(MN4C7;135:135)(MN4C8;136:136)(MN4C9;137:137)(MN4C10;138:138)(MN4C11;139:139)(MN4C12;140:140)(MN4C13;141:141)(MN4C14;142:142)(MN4C15;143:143)(MN4C16;144:144)(MN4C17;145:145)(MN4C18;146:146)(MN4C19;147:147)(MN4C20;148:148)(MN4C21;149:149)(MN4C22;150:150)(MN4C23;151:151)(MN4C24;152:152)(MN4C25;153:153)(MN4C26;154:154)(MN4C27;155:155)(MN4C28;156:156)(MN4C29;157:157)(MN4C30;158:158)(MN4C31;159:159)(MN5C0;160:160)(MN5C1;161:161)(MN5C2;162:162)(MN5C3;163:163)(MN5C4;164:164)(MN5C5;165:165)(MN5C6;166:166)(MN5C7;167:167)(MN5C8;168:168)(MN5C9;169:169)(MN5C10;170:170)(MN5C11;171:171)(MN5C12;172:172)(MN5C13;173:173)(MN5C14;174:174)(MN5C15;175:175)(MN5C16;176:176)(MN5C17;177:177)(MN5C18;178:178)(MN5C19;179:179)(MN5C20;180:180)(MN5C21;181:181)(MN5C22;182:182)(MN5C23;183:183)(MN5C24;184:184)(MN5C25;185:185)(MN5C26;186:186)(MN5C27;187:187)(MN5C28;188:188)(MN5C29;189:189)(MN5C30;190:190)(MN5C31;191:191)(MA0C0;192:192)(MA0C1;193:193)(MA0C2;194:194)(MA0C3;195:195)(MA0C4;196:196)(MA0C5;197:197)(MA0C6;198:198)(MA0C7;199:199)(MA0C8;200:200)(MA0C9;201:201)(MA0C10;202:202)(MA0C11;203:203)(MA0C12;204:204)(MA0C13;205:205)(MA0C14;206:206)(MA0C15;207:207)(MA0C16;208:208)(MA0C17;209:209)(MA0C18;210:210)(MA0C19;211:211)(MA0C20;212:212)(MA0C21;213:213)(MA0C22;214:214)(MA0C23;215:215)(MA0C24;216:216)(MA0C25;217:217)(MA0C26;218:218)(MA0C27;219:219)(MA0C28;220:220)(MA0C29;221:221)(MA0C30;222:222)(MA0C31;223:223)(MA1C0;224:224)(MA1C1;225:225)(MA1C2;226:226)(MA1C3;227:227)(MA1C4;228:228)(MA1C5;229:229)(MA1C6;230:230)(MA1C7;231:231)(MA1C8;232:232)(MA1C9;233:233)(MA1C10;234:234)(MA1C11;235:235)(MA1C12;236:236)(MA1C13;237:237)(MA1C14;238:238)(MA1C15;239:239)(MA1C16;240:240)(MA1C17;241:241)(MA1C18;242:242)(MA1C19;243:243)(MA1C20;244:244)(MA1C21;245:245)(MA1C22;246:246)(MA1C23;247:247)(MA1C24;248:248)(MA1C25;249:249)(MA1C26;250:250)(MA1C27;251:251)(MA1C28;252:252)(MA1C29;253:253)(MA1C30;254:254)(MA1C31;255:255)(XD0;256:256)

The channel map describes the order of graphs in SpikeGLX displays. The header for the nidq stream, here (6,2,32,0,1), indicates there are:

  • 6 MN-type NI-DAQ input channels,
  • 2 MA-type NI-DAQ input channels,
  • 32 multiplexed logical channels per MN/MA input,
  • 0 XA NI-DAQ channels,
  • 1 XD NI-DAQ digital word.

Each subsequent entry in the map has two fields, (:)-separated:

  • Channel name, e.g., 'MN0C2;2'
  • Zero-based order index.

Note: There are map entries only for saved channels.

If Using 2nd Nidq Card

niClockLine2

niDev2

niDev2ProductName

niDualDevMode=true

niMAChans2

niMNChans2

niXAChans2

niXDBytes2

niXDChans2

Imec

acqApLfSy=384,384,1

This is the count of channels, of each type, in each timepoint, at acquisition time.

imAiRangeMax=0.6

Convert from 16-bit analog values (i) to voltages (V) as follows:

V = i * Vmax / Imax / gain.

  • Imax = imMaxInt
  • Vmax = imAiRangeMax

For type 21 or type 24 imec probes:

  • gain = 80 (fixed).

For type 0 or other probes with selectable gain:

  • gain = imroTbl gain entry for AP or LF type.
imAiRangeMin=-0.6

imAnyChanFullBand=false

This is true if the probe has no LF band, or if this a dual-band probe with at least one channel set to full-band in the imro table.

imCalibrated=true

Imec ADC and/or gain calibration files were applied to the probe.

imChan0apGain=100

The AP-band gain applied to channel 0. If you used the graphical imro editor to create your imro file then all channels will have this AP gain.

imChan0lfGain=100

The LF-band gain applied to channel 0. If you used the graphical imro editor to create your imro file then all channels will have this LF gain.

imColsPerShank=2

Number of physical electrode columns on each shank row.

imDatApi=3.31

This is the Imec API version number: major.minor.

imDatBs_fw=2.0.137

This is the BS firmware version number: major.minor.build.

imDatBsc_fw=3.2.176

This is the BSC firmware version number: major.minor.build.

imDatBsc_hw=2.1

This is the BSC hardware version number: major.minor.

imDatBsc_pn=NP2_QBSC_00

This is the BSC part number.

imDatBsc_sn=175

This is the PXI BSC serial number or OneBox ID number.

imDatFx_hw=1.7

This is the Flex hardware version number: major.minor.

imDatFx_pn=NPM_FLEX_0

This is the Flex part number.

imDatFx_sn=0

This is the Flex serial number.

imDatHs_hw=1.0

This is the HS hardware version number: major.minor.

imDatHs_pn=NPM_HS_01

This is the HS part number.

imDatHs_sn=1440

This is the HS serial number.

imDatPrb_dock=1

This is the probe dock number.

imDatPrb_pn=PRB2_1_2_0640_0

This is the probe part number.

imDatPrb_port=1

This is the probe port number.

imDatPrb_slot=2

This is the probe slot number.

imDatPrb_sn=19011116444

This is the probe serial number.

imDatPrb_type=21

This is the probe type {0=NP1.0, 21=NP2.0(1-shank), 24=NP2.0(4-shank)}.

imErrFlags0_IS_CT_SR_LK_PP_SY=0 0 0 0 0 0

For each imec stream we monitor the cumulative count of several error flags, hence, imErrFlags5 denotes the flags for probe steam 5. Note that quad-base probes (part number NP2020/2021) record flags for each shank, hence, imErrFlags3_2 denotes that stream 3 is a quad-probe and the flags are from shank 2.

The flags are labeled {COUNT, SERDES, LOCK, POP, SYNC}. The metadata field 'IS' = 1 if any error occurred, 0 otherwise. I.e., "is an error."

Any instances of these errors implies that samples have been dropped. It is not possible to tell how many samples are dropped from these counts. All you can tell is that some of the data being transmitted from the device are corrupt or missing.

These flags correspond to bits of the status/SYNC word that is visible as the last channel in the graphs and in your recorded data (quad-probes have 4 separate status words):

bit 0: Acquisition start trigger received
bit 1: not used
bit 2: COUNT error
bit 3: SERDES error
bit 4: LOCK error
bit 5: POP error
bit 6: Synchronization waveform
bit 7: SYNC error (unrelated to sync waveform)

It may be possible to see which region of recorded data experienced these errors if you see blips on those bits.

imLEDEnable=false

imLowLatency=false

This mode runs the probe sample fetching loop faster, which reduces the time to get fresh data. However, this drives the CPU 50%+ harder and reduces the maximum number of probes you can safely run concurrently.

imIsSvyRun=false

imMaxInt=512

Maximum amplitude integer encoded in the 16-bit analog channels. Really, in this example [-512..511]. The reason for this apparent asymmetry is that, by convention, zero is grouped with the positive values. The example probe is 10-bit, so encodes 2^10 = 1024 values. There are 512 negative values: [-512..-1] and 512 positives: [0..511]. This convention (zero is a positive number) applies in all signed computer arithmetic.

imRoFile=

This is a path to your custom Imec Readout Table (imRo) file. If you elect default settings no file is needed. The active table content is stored as tag ~imroTbl whether custom or default.

imRowsPerShank=480

Number of electrode rows on each shank.

imSampRate=30000

This is the best estimator of the sample rate. It will be the calibrated rate if calibration was done.

imStdby=0:12,45

These channels had been placed in stand-by mode, which means their analog amplifiers were switched off. Stand-by channels are still read from the hardware and stored in the data stream. The only reason to set stand-by mode is to reduce noise/crosstalk in the system (may not be needed in commercial system).

imSvyMaxBnk=2

The highest bank index to survey.

imSvyNShanks=4

The count of shanks to survey.

imTipLength=206

Number of microns from probe tip to center of lowest electrodes.

imTrgRising=true

Selects whether external trigger detects a rising or falling edge.

imTrgSource=0

Selects the type of trigger that starts the run: {0=software}.

imX0EvenRow=27

Number of microns from left edge of shank to left-most electrode center on an even numbered row.

imX0OddRow=27

Number of microns from left edge of shank to left-most electrode center on an odd numbered row.

imXPitch=32

Electrode column-to-column stride in microns.

imZPitch=15

Electrode row-to-row stride in microns.

snsApLfSy=384,0,1

This is the count of channels, of each type, in each timepoint, as stored in the binary file.

syncImInputSlot=2

The Imec slot getting a sync signal input. You should connect sync signals to only one slot (one SMA). Note that the signal is recorded in the data for each probe as bit 6 of that stream's aux (SY) word.

~anatomy_shank0=(206,306,100,120,40,Thalamus)(306,406,20,60,180,Cortex)

Anatomy string received from Pinpoint software, listing brain regions pierced by given shank (with tips pointing down, shank-0 is left-most).

Each (element) specifies:

  • region-start-microns-from-tip
  • region-end-microns-from-tip
  • RGB: red component
  • RGB: blue component
  • RGB: green component
  • region-label
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314)(1467 3 0 0 315)(1468 3 0 0 316)(1469 3 0 0 317)(1470 3 0 0 318)(1471 3 0 0 319)(1472 3 0 0 320)(1473 3 0 0 321)(1474 3 0 0 322)(1475 3 0 0 323)(1476 3 0 0 324)(1477 3 0 0 325)(1478 3 0 0 326)(1479 3 0 0 327)(1480 3 0 0 328)(1481 3 0 0 329)(1482 3 0 0 330)(1483 3 0 0 331)(1484 3 0 0 332)(1485 3 0 0 333)(1486 3 0 0 334)(1487 3 0 0 335)(1488 3 0 0 336)(1489 3 0 0 337)(1490 3 0 0 338)(1491 3 0 0 339)(1492 3 0 0 340)(1493 3 0 0 341)(1494 3 0 0 342)(1495 3 0 0 343)(1496 3 0 0 344)(1497 3 0 0 345)(1498 3 0 0 346)(1499 3 0 0 347)(1500 3 0 0 348)(1501 3 0 0 349)(1502 3 0 0 350)(1503 3 0 0 351)(1504 3 0 0 352)(1505 3 0 0 353)(1506 3 0 0 354)(1507 3 0 0 355)(1508 3 0 0 356)(1509 3 0 0 357)(1510 3 0 0 358)(1511 3 0 0 359)(1512 3 0 0 360)(1513 3 0 0 361)(1514 3 0 0 362)(1515 3 0 0 363)(1516 3 0 0 364)(1517 3 0 0 365)(1518 3 0 0 366)(1519 3 0 0 367)(1520 3 0 0 368)(1521 3 0 0 369)(1522 3 0 0 370)(1523 3 0 0 371)(1524 3 0 0 372)(1525 3 0 0 373)(1526 3 0 0 374)(1527 3 0 0 375)(1528 3 0 0 376)(1529 3 0 0 377)(1530 3 0 0 378)(1531 3 0 0 379)(1532 3 0 0 380)(1533 3 0 0 381)(1534 3 0 0 382)(1535 3 0 0 383
~imroTbl=(1110,2,0,500,250,1)(0 0 0)(1 0 0)(2 0 0)(3 0 0)(4 0 0)(5 0 0)(6 0 0)(7 0 0)(8 0 0)(9 0 0)(10 0 0)(11 0 0)(12 0 0)(13 0 0)(14 0 0)(15 0 0)(16 0 0)(17 0 0)(18 0 0)(19 0 0)(20 0 0)(21 0 0)(22 0 0)(23 0 0)

The first entry of the Imec Readout Table (imRo) is a header indicating (probe-type, number of channels). The meaning of the subsequent channel entries depends upon the probe type.

Note: Unlike {snsGeomMap, snsShankMap, snsChanMap}, which store entries only for saved channels, the imroTbl always has entries for all acquired channels.

Channel Entries By Type

Type {0,1020,1030,1100,1120,1121,1122,1123,1200,1300}, NP 1.0-like:

  • Channel ID,
  • Bank number of the connected electrode,
  • Reference ID index,
  • AP band gain,
  • LF band gain,
  • AP hipass filter applied (1=ON)

The reference ID values are {0=ext, 1=tip, [2..4]=on-shnk-ref}. The on-shnk ref electrodes are {192,576,960}.

Type {21,2003,2004} (NP 2.0, single multiplexed shank):

  • Channel ID,
  • Bank mask (logical OR of {1=bnk-0, 2=bnk-1, 4=bnk-2, 8=bnk-3}),
  • Reference ID index,
  • Electrode ID (range [0,1279])

Type-21 reference ID values are {0=ext, 1=tip, [2..5]=on-shnk-ref}. The on-shnk ref electrodes are {127,507,887,1251}.

Type-2003,2004 reference ID values are {0=ext, 1=gnd, 2=tip}. On-shank reference electrodes are removed from commercial 2B probes.

Type {24,2013,2014} (NP 2.0, 4-shank):

  • Channel ID,
  • Shank ID (with tips pointing down, shank-0 is left-most),
  • Bank ID,
  • Reference ID index,
  • Electrode ID (range [0,1279] on each shank)

Type-24 reference ID values are {0=ext, [1..4]=tip[0..3], [5..8]=on-shnk-0, [9..12]=on-shnk-1, [13..16]=on-shnk-2, [17..20]=on-shnk-3}. The on-shnk ref electrodes of any shank are {127,511,895,1279}.

Type-2013,2014 reference ID values are {0=ext, 1=gnd, [2..5]=tip[0..3]}. On-shank reference electrodes are removed from commercial 2B probes.

Type {2020,2021} (Quad-probe):

  • Channel ID,
  • Shank ID (with tips pointing down, shank-0 is left-most),
  • Bank ID,
  • Reference ID index,
  • Electrode ID (range [0,1279] on each shank)

Quad-base reference ID values are {0=ext, 1=gnd, 2=tip on same shank as electode}.

Type 1110 (UHD programmable):

This has a unique header:

  • Type (1110),
  • ColumnMode {0=INNER, 1=OUTER, 2=ALL},
  • Reference ID index {0=ext, 1=tip},
  • AP band gain,
  • LF band gain,
  • AP hipass filter applied (1=ON)

And 24 entries following the header:

  • Group ID,
  • Bank-A,
  • Bank-B,
~muxTbl=(32,12)(0 1 24 25 48 49 72 73 96 97 120 121 144 145 168 169 192 193 216 217 240 241 264 265 288 289 312 313 336 337 360 361)(2 3 26 27 50 51 74 75 98 99 122 123 146 147 170 171 194 195 218 219 242 243 266 267 290 291 314 315 338 339 362 363)(4 5 28 29 52 53 76 77 100 101 124 125 148 149 172 173 196 197 220 221 244 245 268 269 292 293 316 317 340 341 364 365)(6 7 30 31 54 55 78 79 102 103 126 127 150 151 174 175 198 199 222 223 246 247 270 271 294 295 318 319 342 343 366 367)(8 9 32 33 56 57 80 81 104 105 128 129 152 153 176 177 200 201 224 225 248 249 272 273 296 297 320 321 344 345 368 369)(10 11 34 35 58 59 82 83 106 107 130 131 154 155 178 179 202 203 226 227 250 251 274 275 298 299 322 323 346 347 370 371)(12 13 36 37 60 61 84 85 108 109 132 133 156 157 180 181 204 205 228 229 252 253 276 277 300 301 324 325 348 349 372 373)(14 15 38 39 62 63 86 87 110 111 134 135 158 159 182 183 206 207 230 231 254 255 278 279 302 303 326 327 350 351 374 375)(16 17 40 41 64 65 88 89 112 113 136 137 160 161 184 185 208 209 232 233 256 257 280 281 304 305 328 329 352 353 376 377)(18 19 42 43 66 67 90 91 114 115 138 139 162 163 186 187 210 211 234 235 258 259 282 283 306 307 330 331 354 355 378 379)(20 21 44 45 68 69 92 93 116 117 140 141 164 165 188 189 212 213 236 237 260 261 284 285 308 309 332 333 356 357 380 381)(22 23 46 47 70 71 94 95 118 119 142 143 166 167 190 191 214 215 238 239 262 263 286 287 310 311 334 335 358 359 382 383)

The multiplexing table header describes (nADC,nGrp) where nADC is the number of analog-to-digital converters on the probe, hence, the number of channels that are digitized at the same time, and nGrp is the number of channels assigned to each ADC, hence, the number of channel groups that are digitized for each sample.

There are count=nGrp subsequent entries (), each listing the count=nADC channels that are digitized together. The table is used to "tshift" the data which temporally aligns the channel groups to each other. This is done by post-processing software such as CatGT.

~snsChanMap=(384,384,1)(AP0;0:0)(AP1;1:1)(AP2;2:2)(AP3;3:3)(AP4;4:4)(AP5;5:5)(AP6;6:6)(AP7;7:7)(AP8;8:8)(AP9;9:9)(AP10;10:10)(AP11;11:11)(AP12;12:12)(AP13;13:13)(AP14;14:14)(AP15;15:15)(AP16;16:16)(AP17;17:17)(AP18;18:18)(AP19;19:19)(AP20;20:20)(AP21;21:21)(AP22;22:22)(AP23;23:23)(AP24;24:24)(AP25;25:25)(AP26;26:26)(AP27;27:27)(AP28;28:28)(AP29;29:29)(AP30;30:30)(AP31;31:31)(AP32;32:32)(AP33;33:33)(AP34;34:34)(AP35;35:35)(AP36;36:36)(AP37;37:37)(AP38;38:38)(AP39;39:39)(AP40;40:40)(AP41;41:41)(AP42;42:42)(AP43;43:43)(AP44;44:44)(AP45;45:45)(AP46;46:46)(AP47;47:47)(AP48;48:48)(AP49;49:49)(AP50;50:50)(AP51;51:51)(AP52;52:52)(AP53;53:53)(AP54;54:54)(AP55;55:55)(AP56;56:56)(AP57;57:57)(AP58;58:58)(AP59;59:59)(AP60;60:60)(AP61;61:61)(AP62;62:62)(AP63;63:63)(AP64;64:64)(AP65;65:65)(AP66;66:66)(AP67;67:67)(AP68;68:68)(AP69;69:69)(AP70;70:70)(AP71;71:71)(AP72;72:72)(AP73;73:73)(AP74;74:74)(AP75;75:75)(AP76;76:76)(AP77;77:77)(AP78;78:78)(AP79;79:79)(AP80;80:80)(AP81;81:81)(AP82;82:82)(AP83;83:83)(AP84;84:84)(AP85;85:85)(AP86;86:86)(AP87;87:87)(AP88;88:88)(AP89;89:89)(AP90;90:90)(AP91;91:91)(AP92;92:92)(AP93;93:93)(AP94;94:94)(AP95;95:95)(AP96;96:96)(AP97;97:97)(AP98;98:98)(AP99;99:99)(AP100;100:100)(AP101;101:101)(AP102;102:102)(AP103;103:103)(AP104;104:104)(AP105;105:105)(AP106;106:106)(AP107;107:107)(AP108;108:108)(AP109;109:109)(AP110;110:110)(AP111;111:111)(AP112;112:112)(AP113;113:113)(AP114;114:114)(AP115;115:115)(AP116;116:116)(AP117;117:117)(AP118;118:118)(AP119;119:119)(AP120;120:120)(AP121;121:121)(AP122;122:122)(AP123;123:123)(AP124;124:124)(AP125;125:125)(AP126;126:126)(AP127;127:127)(AP128;128:128)(AP129;129:129)(AP130;130:130)(AP131;131:131)(AP132;132:132)(AP133;133:133)(AP134;134:134)(AP135;135:135)(AP136;136:136)(AP137;137:137)(AP138;138:138)(AP139;139:139)(AP140;140:140)(AP141;141:141)(AP142;142:142)(AP143;143:143)(AP144;144:144)(AP145;145:145)(AP146;146:146)(AP147;147:147)(AP148;148:148)(AP149;149:149)(AP150;150:150)(AP151;151:151)(AP152;152:152)(AP153;153:153)(AP154;154:154)(AP155;155:155)(AP156;156:156)(AP157;157:157)(AP158;158:158)(AP159;159:159)(AP160;160:160)(AP161;161:161)(AP162;162:162)(AP163;163:163)(AP164;164:164)(AP165;165:165)(AP166;166:166)(AP167;167:167)(AP168;168:168)(AP169;169:169)(AP170;170:170)(AP171;171:171)(AP172;172:172)(AP173;173:173)(AP174;174:174)(AP175;175:175)(AP176;176:176)(AP177;177:177)(AP178;178:178)(AP179;179:179)(AP180;180:180)(AP181;181:181)(AP182;182:182)(AP183;183:183)(AP184;184:184)(AP185;185:185)(AP186;186:186)(AP187;187:187)(AP188;188:188)(AP189;189:189)(AP190;190:190)(AP191;191:191)(AP192;192:192)(AP193;193:193)(AP194;194:194)(AP195;195:195)(AP196;196:196)(AP197;197:197)(AP198;198:198)(AP199;199:199)(AP200;200:200)(AP201;201:201)(AP202;202:202)(AP203;203:203)(AP204;204:204)(AP205;205:205)(AP206;206:206)(AP207;207:207)(AP208;208:208)(AP209;209:209)(AP210;210:210)(AP211;211:211)(AP212;212:212)(AP213;213:213)(AP214;214:214)(AP215;215:215)(AP216;216:216)(AP217;217:217)(AP218;218:218)(AP219;219:219)(AP220;220:220)(AP221;221:221)(AP222;222:222)(AP223;223:223)(AP224;224:224)(AP225;225:225)(AP226;226:226)(AP227;227:227)(AP228;228:228)(AP229;229:229)(AP230;230:230)(AP231;231:231)(AP232;232:232)(AP233;233:233)(AP234;234:234)(AP235;235:235)(AP236;236:236)(AP237;237:237)(AP238;238:238)(AP239;239:239)(AP240;240:240)(AP241;241:241)(AP242;242:242)(AP243;243:243)(AP244;244:244)(AP245;245:245)(AP246;246:246)(AP247;247:247)(AP248;248:248)(AP249;249:249)(AP250;250:250)(AP251;251:251)(AP252;252:252)(AP253;253:253)(AP254;254:254)(AP255;255:255)(AP256;256:256)(AP257;257:257)(AP258;258:258)(AP259;259:259)(AP260;260:260)(AP261;261:261)(AP262;262:262)(AP263;263:263)(AP264;264:264)(AP265;265:265)(AP266;266:266)(AP267;267:267)(AP268;268:268)(AP269;269:269)(AP270;270:270)(AP271;271:271)(AP272;272:272)(AP273;273:273)(AP274;274:274)(AP275;275:275)(AP276;276:276)(AP277;277:277)(AP278;278:278)(AP279;279:279)(AP280;280:280)(AP281;281:281)(AP282;282:282)(AP283;283:283)(AP284;284:284)(AP285;285:285)(AP286;286:286)(AP287;287:287)(AP288;288:288)(AP289;289:289)(AP290;290:290)(AP291;291:291)(AP292;292:292)(AP293;293:293)(AP294;294:294)(AP295;295:295)(AP296;296:296)(AP297;297:297)(AP298;298:298)(AP299;299:299)(AP300;300:300)(AP301;301:301)(AP302;302:302)(AP303;303:303)(AP304;304:304)(AP305;305:305)(AP306;306:306)(AP307;307:307)(AP308;308:308)(AP309;309:309)(AP310;310:310)(AP311;311:311)(AP312;312:312)(AP313;313:313)(AP314;314:314)(AP315;315:315)(AP316;316:316)(AP317;317:317)(AP318;318:318)(AP319;319:319)(AP320;320:320)(AP321;321:321)(AP322;322:322)(AP323;323:323)(AP324;324:324)(AP325;325:325)(AP326;326:326)(AP327;327:327)(AP328;328:328)(AP329;329:329)(AP330;330:330)(AP331;331:331)(AP332;332:332)(AP333;333:333)(AP334;334:334)(AP335;335:335)(AP336;336:336)(AP337;337:337)(AP338;338:338)(AP339;339:339)(AP340;340:340)(AP341;341:341)(AP342;342:342)(AP343;343:343)(AP344;344:344)(AP345;345:345)(AP346;346:346)(AP347;347:347)(AP348;348:348)(AP349;349:349)(AP350;350:350)(AP351;351:351)(AP352;352:352)(AP353;353:353)(AP354;354:354)(AP355;355:355)(AP356;356:356)(AP357;357:357)(AP358;358:358)(AP359;359:359)(AP360;360:360)(AP361;361:361)(AP362;362:362)(AP363;363:363)(AP364;364:364)(AP365;365:365)(AP366;366:366)(AP367;367:367)(AP368;368:368)(AP369;369:369)(AP370;370:370)(AP371;371:371)(AP372;372:372)(AP373;373:373)(AP374;374:374)(AP375;375:375)(AP376;376:376)(AP377;377:377)(AP378;378:378)(AP379;379:379)(AP380;380:380)(AP381;381:381)(AP382;382:382)(AP383;383:383)(SY0;768:768)

The channel map describes the order of graphs in SpikeGLX displays. The header for the imec stream, here (384,384,1), indicates there are:

  • 384 AP-band channels,
  • 384 LF-band channels,
  • 1 SY (sync) channel.

Each subsequent entry in the map has two fields, (:)-separated:

  • Channel name, e.g., 'AP2;2'
  • Zero-based order index.

Note: There are map entries only for saved channels.

~snsGeomMap=(NP1000,1,0,70)(0:27:0:1)(0:59:0:1)(0:11:20:1)(0:43:20:1)(0:27:40:1)(0:59:40:1)(0:11:60:1)(0:43:60:1)(0:27:80:1)(0:59:80:1)(0:11:100:1)(0:43:100:1)(0:27:120:1)(0:59:120:1)(0:11:140:1)(0:43:140:1)(0:27:160:1)(0:59:160:1)(0:11:180:1)(0:43:180:1)(0:27:200:1)(0:59:200:1)(0:11:220:1)(0:43:220:1)(0:27:240:1)(0:59:240:1)(0:11:260:1)(0:43:260:1)(0:27:280:1)(0:59:280:1)(0:11:300:1)(0:43:300:1)(0:27:320:1)(0:59:320:1)(0:11:340:1)(0:43:340:1)(0:27:360:1)(0:59:360:1)(0:11:380:1)(0:43:380:1)(0:27:400:1)(0:59:400:1)(0:11:420:1)(0:43:420:1)(0:27:440:1)(0:59:440:1)(0:11:460:1)(0:43:460:1)(0:27:480:1)(0:59:480:1)(0:11:500:1)(0:43:500:1)(0:27:520:1)(0:59:520:1)(0:11:540:1)(0:43:540:1)(0:27:560:1)(0:59:560:1)(0:11:580:1)(0:43:580:1)(0:27:600:1)(0:59:600:1)(0:11:620:1)(0:43:620:1)(0:27:640:1)(0:59:640:1)(0:11:660:1)(0:43:660:1)(0:27:680:1)(0:59:680:1)(0:11:700:1)(0:43:700:1)(0:27:720:1)(0:59:720:1)(0:11:740:1)(0:43:740:1)(0:27:760:1)(0:59:760:1)(0:11:780:1)(0:43:780:1)(0:27:800:1)(0:59:800:1)(0:11:820:1)(0:43:820:1)(0:27:840:1)(0:59:840:1)(0:11:860:1)(0:43:860:1)(0:27:880:1)(0:59:880:1)(0:11:900:1)(0:43:900:1)(0:27:920:1)(0:59:920:1)(0:11:940:1)(0:43:940:1)(0:27:960:1)(0:59:960:1)(0:11:980:1)(0:43:980:1)(0:27:1000:1)(0:59:1000:1)(0:11:1020:1)(0:43:1020:1)(0:27:1040:1)(0:59:1040:1)(0:11:1060:1)(0:43:1060:1)(0:27:1080:1)(0:59:1080:1)(0:11:1100:1)(0:43:1100:1)(0:27:1120:1)(0:59:1120:1)(0:11:1140:1)(0:43:1140:1)(0:27:1160:1)(0:59:1160:1)(0:11:1180:1)(0:43:1180:1)(0:27:1200:1)(0:59:1200:1)(0:11:1220:1)(0:43:1220:1)(0:27:1240:1)(0:59:1240:1)(0:11:1260:1)(0:43:1260:1)(0:27:1280:1)(0:59:1280:1)(0:11:1300:1)(0:43:1300:1)(0:27:1320:1)(0:59:1320:1)(0:11:1340:1)(0:43:1340:1)(0:27:1360:1)(0:59:1360:1)(0:11:1380:1)(0:43:1380:1)(0:27:1400:1)(0:59:1400:1)(0:11:1420:1)(0:43:1420:1)(0:27:1440:1)(0:59:1440:1)(0:11:1460:1)(0:43:1460:1)(0:27:1480:1)(0:59:1480:1)(0:11:1500:1)(0:43:1500:1)(0:27:1520:1)(0:59:1520:1)(0:11:1540:1)(0:43:1540:1)(0:27:1560:1)(0:59:1560:1)(0:11:1580:1)(0:43:1580:1)(0:27:1600:1)(0:59:1600:1)(0:11:1620:1)(0:43:1620:1)(0:27:1640:1)(0:59:1640:1)(0:11:1660:1)(0:43:1660:1)(0:27:1680:1)(0:59:1680:1)(0:11:1700:1)(0:43:1700:1)(0:27:1720:1)(0:59:1720:1)(0:11:1740:1)(0:43:1740:1)(0:27:1760:1)(0:59:1760:1)(0:11:1780:1)(0:43:1780:1)(0:27:1800:1)(0:59:1800:1)(0:11:1820:1)(0:43:1820:1)(0:27:1840:1)(0:59:1840:1)(0:11:1860:1)(0:43:1860:1)(0:27:1880:1)(0:59:1880:1)(0:11:1900:1)(0:43:1900:0)(0:27:1920:1)(0:59:1920:1)(0:11:1940:1)(0:43:1940:1)(0:27:1960:1)(0:59:1960:1)(0:11:1980:1)(0:43:1980:1)(0:27:2000:1)(0:59:2000:1)(0:11:2020:1)(0:43:2020:1)(0:27:2040:1)(0:59:2040:1)(0:11:2060:1)(0:43:2060:1)(0:27:2080:1)(0:59:2080:1)(0:11:2100:1)(0:43:2100:1)(0:27:2120:1)(0:59:2120:1)(0:11:2140:1)(0:43:2140:1)(0:27:2160:1)(0:59:2160:1)(0:11:2180:1)(0:43:2180:1)(0:27:2200:1)(0:59:2200:1)(0:11:2220:1)(0:43:2220:1)(0:27:2240:1)(0:59:2240:1)(0:11:2260:1)(0:43:2260:1)(0:27:2280:1)(0:59:2280:1)(0:11:2300:1)(0:43:2300:1)(0:27:2320:1)(0:59:2320:1)(0:11:2340:1)(0:43:2340:1)(0:27:2360:1)(0:59:2360:1)(0:11:2380:1)(0:43:2380:1)(0:27:2400:1)(0:59:2400:1)(0:11:2420:1)(0:43:2420:1)(0:27:2440:1)(0:59:2440:1)(0:11:2460:1)(0:43:2460:1)(0:27:2480:1)(0:59:2480:1)(0:11:2500:1)(0:43:2500:1)(0:27:2520:1)(0:59:2520:1)(0:11:2540:1)(0:43:2540:1)(0:27:2560:1)(0:59:2560:1)(0:11:2580:1)(0:43:2580:1)(0:27:2600:1)(0:59:2600:1)(0:11:2620:1)(0:43:2620:1)(0:27:2640:1)(0:59:2640:1)(0:11:2660:1)(0:43:2660:1)(0:27:2680:1)(0:59:2680:1)(0:11:2700:1)(0:43:2700:1)(0:27:2720:1)(0:59:2720:1)(0:11:2740:1)(0:43:2740:1)(0:27:2760:1)(0:59:2760:1)(0:11:2780:1)(0:43:2780:1)(0:27:2800:1)(0:59:2800:1)(0:11:2820:1)(0:43:2820:1)(0:27:2840:1)(0:59:2840:1)(0:11:2860:1)(0:43:2860:1)(0:27:2880:1)(0:59:2880:1)(0:11:2900:1)(0:43:2900:1)(0:27:2920:1)(0:59:2920:1)(0:11:2940:1)(0:43:2940:1)(0:27:2960:1)(0:59:2960:1)(0:11:2980:1)(0:43:2980:1)(0:27:3000:1)(0:59:3000:1)(0:11:3020:1)(0:43:3020:1)(0:27:3040:1)(0:59:3040:1)(0:11:3060:1)(0:43:3060:1)(0:27:3080:1)(0:59:3080:1)(0:11:3100:1)(0:43:3100:1)(0:27:3120:1)(0:59:3120:1)(0:11:3140:1)(0:43:3140:1)(0:27:3160:1)(0:59:3160:1)(0:11:3180:1)(0:43:3180:1)(0:27:3200:1)(0:59:3200:1)(0:11:3220:1)(0:43:3220:1)(0:27:3240:1)(0:59:3240:1)(0:11:3260:1)(0:43:3260:1)(0:27:3280:1)(0:59:3280:1)(0:11:3300:1)(0:43:3300:1)(0:27:3320:1)(0:59:3320:1)(0:11:3340:1)(0:43:3340:1)(0:27:3360:1)(0:59:3360:1)(0:11:3380:1)(0:43:3380:1)(0:27:3400:1)(0:59:3400:1)(0:11:3420:1)(0:43:3420:1)(0:27:3440:1)(0:59:3440:1)(0:11:3460:1)(0:43:3460:1)(0:27:3480:1)(0:59:3480:1)(0:11:3500:1)(0:43:3500:1)(0:27:3520:1)(0:59:3520:1)(0:11:3540:1)(0:43:3540:1)(0:27:3560:1)(0:59:3560:1)(0:11:3580:1)(0:43:3580:1)(0:27:3600:1)(0:59:3600:1)(0:11:3620:1)(0:43:3620:1)(0:27:3640:1)(0:59:3640:1)(0:11:3660:1)(0:43:3660:1)(0:27:3680:1)(0:59:3680:1)(0:11:3700:1)(0:43:3700:1)(0:27:3720:1)(0:59:3720:1)(0:11:3740:1)(0:43:3740:1)(0:27:3760:1)(0:59:3760:1)(0:11:3780:1)(0:43:3780:1)(0:27:3800:1)(0:59:3800:1)(0:11:3820:1)(0:43:3820:1)

The GeomMap replaces the ShankMap for imec probes (as of SpikeGLX 20230202). It describes how electrodes are arranged on the probe. The first () entry is a header. Here, (NP1000,1,0,70) indicates probe part-number NP1000. This standard NP 1.0 probe has 1 shank, the spacing between shanks is 0 microns and the per_shank_width is 70 microns. Each following electrode entry has four values (s:x:z:u):

  1. zero-based shank # (with tips pointing down, shank-0 is left-most),

  2. x-coordinate (um) of elecrode center,

  3. z-coordinate (um) of elecrode center,

  4. 0/1 "used," or, (u-flag), indicating if the electrode should be drawn in the FileViewer and ShankViewer windows, and if it should be included in spatial average <S> calculations.

(X,Z) Coordinates: Looking face-on at a probe with tip pointing downward, X is measured along the width of the probe, from left to right. The X-origin is the left edge of the shank. Z is measured along the shank of the probe, from tip, upward, toward the probe base. The Z-origin is the center of the bottom-most elecrode row (closest to the tip). Note that for a multi-shank probe, each shank has its own (X,Z) origin and coordinate system. That is, the (X,Z) location of an electrode is given relative to its own shank (with tips pointing down, shank-0 is left-most).

Note: There are electrode entries only for saved channels.

~svySBTT=(0 1 312963 360017)(0 2 644811 692174)

The list of survey transitions: (shank, bank, start-time(samples), end-time(samples)).

Obx

acqXaDwSy

This is the count of channels, of each type, in each timepoint, at acquisition time.

obAiRangeMax=5.0

Convert from 16-bit analog values (i) to voltages (V) as follows:

V = i * Vmax / Imax.

For obx data:

  • Imax = 32768
  • Vmax = obAiRangeMax
obAiRangeMin=-5.0

obMaxInt=32768

Maximum amplitude integer encoded in the 16-bit analog channels. Really, in this example [-32768..32767]. The reason for this apparent asymmetry is that, by convention, zero is grouped with the positive values. The stream is 16-bit so can encode 2^16 = 65536 values. There are 32768 negative values: [-32768..-1] and 32768 positives: [0..32767]. This convention (zero is a positive number) applies in all signed computer arithmetic.

obSampRate=30000

This is the best estimator of the sample rate. It will be the calibrated rate if calibration was done.

imDatApi=3.31

This is the Imec API version number: major.minor.

imDatBs_fw=2.0.137

This is the BS firmware version number: major.minor.build.

imDatBsc_fw=3.2.176

This is the BSC firmware version number: major.minor.build.

imDatBsc_hw=2.1

This is the BSC hardware version number: major.minor.

imDatBsc_pn=NP2_QBSC_00

This is the BSC part number.

imDatBsc_sn=175

This is the PXI BSC serial number or OneBox ID number.

imDatObx_slot=25

This is the obx slot number, range [20..31].

imTrgRising=true

Selects whether external trigger detects a rising or falling edge.

imTrgSource=0

Selects the type of trigger that starts the run: {0=software}.

snsXaDwSy=11,1,1

This is the count of channels, of each type, in each timepoint, as stored in the binary file.

~snsChanMap=(11,1,1)(XA0;0:0)(XA1;1:1)(XA2;2:2)(XA3;3:3)(XA4;4:4)(XA5;5:5)(XA6;6:6)(XA7;7:7)(XA8;8:8)(XA9;9:9)(XA10;10:10)(XD0;11:11)(SY0;12:12)

The channel map describes the order of graphs in SpikeGLX displays. The header for the obx stream, here (11,1,1), indicates there are:

  • 11 XA-type obx analog input channels,
  • 1 XD-type obx digital word.
  • 1 SY (sync) channel.

Each subsequent entry in the map has two fields, (:)-separated:

  • Channel name, e.g., 'XA2;2'
  • Zero-based order index.

Note: There are map entries only for saved channels.

fin