Miscellaneous tools for marine carbonate chemistry and other delights
Project description
koolstof
Miscellaneous tools for marine carbonate chemistry and other delights.
Highly unstable and unreliably documented.
Install:
pip install koolstof
Import:
import koolstof as ks
ks
Miscellaneous functions at the top level.
ks.sigfig
Round NumPy array x
to sf
significant figures.
x = ks.sigfig(x, sf)
ks.vindta
Import and parse the data files produced by the Marianda VINDTA 3C.
This module is totally unofficial and in no way endorsed by Marianda!
ks.vindta.read_dbs
Import a VINDTA .dbs file as a Pandas DataFrame.
dbs = ks.vindta.read_dbs(filepath)
ks.vindta.addfunccols
Append new columns to a Pandas DataFrame df
containing the results of df.apply(func)
.
df = ks.vindta.addfunccols(df, func, *args)
The function input should have the signature func(x, *args)
where x
refers to each row of df
.
ks.vindta.read_logfile
Import a VINDTA logfile.bak as a Pandas DataFrame.
logfile = ks.vindta.read_logfile(filepath, methods=['3C standard'])
Optional input methods
allows you to specify your own set of method file names that should be treated as DIC samples, as a list of strings excluding the .mth extension.
ks.vindta.logfile2dbs
Get the iloc index in logfile
corresponding to each row in a dbs
by matching both the bottle name and analysis time.
dbs = ks.vindta.logfile2dbs(dbs, logfile)
ks.vindta.get_blanks
Calculate the sample-by-sample blank values from the logfile.
You must first run ks.vindta.logfile2dbs()
to get the field logfile_iloc
in dbs
!
dbs = ks.vindta.get_blanks(dbs, logfile, usefrom=6)
usefrom
determines which minute of each coulometric analysis to start measuring the blank from. You could use ks.vindta.plot.increments()
to help decide what value to use here.
ks.vindta.plot
Quickly make some standard figures that assist with calibrating and QCing VINDTA datasets.
You must first create your own axes to plot onto and to pass into these functions as the input ax
, e.g.:
from matplotlib import pyplot as plt
fig, ax = plt.subplots()
ks.vindta.plot.increments
Plot coulometer increments minute-by-minute for all samples that appear in both the dbs
and the logfile
.
You must first run ks.vindta.logfile2dbs()
to get the field logfile_iloc
in dbs
!
ax = ks.vindta.plot.increments(ax, dbs, logfile, c='xkcd:navy', alpha=0.25, **kwargs)
Any additional kwargs
are passed on to plt.plot
to generate the plotted lines.
Example figure:
ks.vindta.plot.blanks
Plot sample-by-sample coulometer blank values against analysis date.
You must first run ks.vindta.get_blanks()
to calculate the sample-by-sample blank values!
ax = ks.vindta.plot.blanks(ax, dbs, c='xkcd:navy', alpha=0.5, **kwargs)
Any additional kwargs
are passed on to plt.scatter
to generate the plotted data points.
Example figure:
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