@@ -144,7 +144,7 @@ First, plot the data without performing peak extraction. The first argument
144144must be either a PDF (as here) or a .srmise file (described later) saved by
145145SrMise. ::
146146
147- srmise data/Ag_nyquist_qmax30 .gr --no-extract --plot
147+ srmise docs/examples/ data/Ag-nyquist-qmax30 .gr --no-extract --plot
148148
149149This should result in an image very similar to the one below. The top shows the
150150experimental data in blue. The bottom shows the difference curve, which is
@@ -160,7 +160,7 @@ performing peak extraction from around 2 Å to 3.5 Å will be sufficient. To
160160restrict peak extraction to this interval use the ``--range `` option, which
161161accepts a pair of values. ::
162162
163- srmise data/Ag_nyquist_qmax30 .gr --no-extract --plot --range 2 3.5
163+ srmise docs/examples/ data/Ag-nyquist-qmax30 .gr --no-extract --plot --range 2 3.5
164164
165165The PDF baseline of a crystal is linear, and a reasonable crystal baseline can
166166often be automatically estimated. To estimate baseline parameters
@@ -170,7 +170,7 @@ baseline for which SrMise provides automatic estimation. Since the results of
170170peak extraction are conditioned on the baseline parameters, it is a good idea to
171171see whether they are reasonable. ::
172172
173- srmise data/Ag_nyquist_qmax30 .gr --no-extract --plot --range 2 3.5
173+ srmise docs/examples/ data/Ag-nyquist-qmax30 .gr --no-extract --plot --range 2 3.5
174174 --baseline "Polynomial(degree=1)"
175175
176176|images/extract_single_peak2.png |
@@ -179,7 +179,7 @@ The estimated baseline looks reasonable, so it's time to perform peak extraction
179179By default ``srmise `` performs extraction when run, so simply remove the
180180``--no-extract `` option. ::
181181
182- srmise data/Ag_nyquist_qmax30 .gr --plot --range 2 3.5
182+ srmise docs/examples/ data/Ag-nyquist-qmax30 .gr --plot --range 2 3.5
183183 --baseline "Polynomial(degree=1)"
184184
185185|images/extract_single_peak3.png |
@@ -206,7 +206,7 @@ options.
206206The script gives results identical to the commands above, and also saves both a
207207.srmise and .pwa file in the *output * directory. Verify this by running it. ::
208208
209- python extract_single_peak .py
209+ python extract-single-peak .py
210210
211211
212212.. ~Example 2~ ..
@@ -236,7 +236,7 @@ which sets SrMise parameters as part of the following pattern: ::
236236
237237Run and plot the results of this example with ::
238238
239- python parameter_summary .py
239+ python parameter-summary .py
240240
241241|images/parameter_summary1.png |
242242
@@ -296,7 +296,7 @@ follows: ::
296296
297297Run the following command to view this baseline. ::
298298
299- srmise data/TiO2_fine_qmax26 .gr --bpoly1 -0.65 0c --range 0 10
299+ srmise data/TiO2-fine-qmax26 .gr --bpoly1 -0.65 0c --range 0 10
300300 --no-extract --plot
301301
302302|images/parameter_summary2.png |
@@ -634,14 +634,14 @@ First, visually check that the baseline obtained in the earlier silver example
634634(set using the ``--bsrmise filename.srmise `` option) is reasonable over a
635635larger range. ::
636636
637- srmise data/Ag_nyquist_qmax30 .gr --no-extract --plot --range 2 10
637+ srmise docs/examples/ data/Ag-nyquist-qmax30 .gr --no-extract --plot --range 2 10
638638 --bsrmise output/query_results.srmise
639639
640640|images/query_results1.png |
641641
642642Next, run ::
643643
644- python query_results .py
644+ python query-results .py
645645
646646to perform peak extraction, the example analysis, and obtain the two plots
647647below.
@@ -764,8 +764,8 @@ Details of the multimodeling procedure are discussed in the comments of the
764764extraction and analysis scripts. Run these, noting that the extraction script
765765may take several minutes to complete. ::
766766
767- python multimodel_known_dG1 .py
768- python multimodel_known_dG2 .py
767+ python multimodel-known-dG1 .py
768+ python multimodel-known-dG2 .py
769769
770770.. ~Example 6~ ..
771771
@@ -808,8 +808,8 @@ Details of the multimodeling procedure are discussed in the comments of the
808808extraction and analysis scripts. Run these, noting that the extraction script
809809may take several minutes to complete. ::
810810
811- python multimodel_unknown_dG1 .py
812- python multimodel_unknown_dG2 .py
811+ python multimodel-unknown-dG1 .py
812+ python multimodel-unknown-dG2 .py
813813
814814.. ~PDF Info~ ..
815815
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